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This page was generated on 2024-05-22 11:35:27 -0400 (Wed, 22 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 (2024-04-24) -- "Puppy Cup" 4751
palomino3Windows Server 2022 Datacenterx644.4.0 (2024-04-24 ucrt) -- "Puppy Cup" 4485
lconwaymacOS 12.7.1 Montereyx86_644.4.0 (2024-04-24) -- "Puppy Cup" 3444
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

Package 200/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.10.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-05-21 14:00:15 -0400 (Tue, 21 May 2024)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_19
git_last_commit: fad38a4
git_last_commit_date: 2024-04-30 11:37:31 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

CHECK results for biodbChebi on palomino3


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: 1.10.0
Command: F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings biodbChebi_1.10.0.tar.gz
StartedAt: 2024-05-21 23:33:00 -0400 (Tue, 21 May 2024)
EndedAt: 2024-05-21 23:38:03 -0400 (Tue, 21 May 2024)
EllapsedTime: 302.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbChebi.install-out.txt --library=F:\biocbuild\bbs-3.19-bioc\R\library --no-vignettes --timings biodbChebi_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.19-bioc/meat/biodbChebi.Rcheck'
* using R version 4.4.0 (2024-04-24 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbChebi/DESCRIPTION' ... OK
* this is package 'biodbChebi' version '1.10.0'
* 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 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   1.83   62.47
* 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:
###
###   F:\biocbuild\bbs-3.19-bioc\R\bin\R.exe CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.19-bioc/R/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 (2024-04-24 ucrt) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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 [2024-05-21 23:36:48.992][biodb::testContext]
biodb.INFO [2024-05-21 23:36:48.997][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 23:36:48.999][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-05-21 23:36:49.001][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 23:36:49.004][biodb::testContext]
biodb.INFO [2024-05-21 23:36:49.016][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-21 23:36:49.020][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.19-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-05-21 23:36:49.030][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:36:49.032][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-21 23:36:49.034][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-21 23:36:49.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.040][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-21 23:36:49.076][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-21 23:36:49.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.080][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.081][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-21 23:36:49.083][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-21 23:36:49.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.087][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-21 23:36:49.089][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-21 23:36:49.090][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-21 23:36:49.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.093][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.095][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-21 23:36:49.096][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-21 23:36:49.097][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-21 23:36:49.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.102][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-21 23:36:49.103][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-21 23:36:49.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.106][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.108][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-21 23:36:49.109][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-21 23:36:49.110][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-21 23:36:49.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.115][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-21 23:36:49.117][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-21 23:36:49.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.120][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.121][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-21 23:36:49.123][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-21 23:36:49.124][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-21 23:36:49.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.129][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-21 23:36:49.130][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-21 23:36:49.131][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-21 23:36:49.133][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-21 23:36:49.134][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-21 23:36:49.135][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-21 23:36:49.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.139][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[2024-05-21 23:36:49.140][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-21 23:36:49.141][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-21 23:36:49.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.146][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-21 23:36:49.147][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-21 23:36:49.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.150][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.152][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-21 23:36:49.153][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-21 23:36:49.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.160][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-21 23:36:49.162][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-21 23:36:49.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.168][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.170][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-21 23:36:49.172][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-21 23:36:49.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.179][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-21 23:36:49.181][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-21 23:36:49.188][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-21 23:36:49.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.193][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[2024-05-21 23:36:49.195][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-21 23:36:49.197][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-21 23:36:49.199][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-21 23:36:49.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:36:49.210][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-21 23:36:49.262][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.286][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-21 23:36:49.288][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.290][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:36:49.292][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.294][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.296][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.298][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.300][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 23:36:49.302][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:36:49.304][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.306][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-21 23:36:49.308][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:36:49.310][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.312][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.314][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:36:49.314][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:36:49.314][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:36:49.314][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 23:36:49.314][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 23:36:49.316][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:36:49.318][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:49.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:49.321][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:36:49.323][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:49.325][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:49.327][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.329][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.331][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:36:49.333][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:36:49.335][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.337][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.339][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-21 23:36:49.343][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.354][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 23:36:49.356][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.358][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:36:49.360][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.362][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.364][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.366][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.367][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 23:36:49.369][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:36:49.370][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.371][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-21 23:36:49.372][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:36:49.374][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.375][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.376][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:36:49.376][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:36:49.376][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:36:49.376][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 23:36:49.376][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 23:36:49.377][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:36:49.378][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:49.380][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:49.381][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:36:49.382][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:49.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:49.384][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.385][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.387][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:36:49.388][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:36:49.389][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.390][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.392][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-21 23:36:49.394][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.395][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-21 23:36:49.396][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.397][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:36:49.399][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.400][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.401][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.402][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.404][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 23:36:49.405][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:36:49.406][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.407][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-21 23:36:49.409][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:36:49.410][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.412][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.413][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.414][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:36:49.416][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:49.417][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:49.418][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:36:49.420][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:49.421][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:49.422][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.423][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.425][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:36:49.426][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:36:49.427][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.428][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.430][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-21 23:36:49.432][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.433][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 23:36:49.434][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.436][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:36:49.437][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.439][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.440][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.441][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.443][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 23:36:49.444][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:36:49.446][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.448][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-21 23:36:49.449][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:36:49.451][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.452][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:49.454][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.455][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:36:49.456][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:49.458][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:49.460][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:36:49.461][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:49.463][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:49.464][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:36:49.466][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.467][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:36:49.468][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:36:49.469][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:49.471][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:36:49.475][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:36:49.476][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.477][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[2024-05-21 23:36:49.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.483][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.490][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.495][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.502][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[2024-05-21 23:36:49.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.507][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.DEBUG[2024-05-21 23:36:49.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.513][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.519][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.525][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.531][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[2024-05-21 23:36:49.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.537][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.543][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.549][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.556][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[2024-05-21 23:36:49.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.561][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[2024-05-21 23:36:49.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.567][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.573][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[2024-05-21 23:36:49.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.579][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.580][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-21 23:36:49.585][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-21 23:36:49.586][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-21 23:36:49.588][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-21 23:36:49.590][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 23:36:49.592][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 23:36:49.594][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-21 23:36:49.601][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-21 23:36:49.603][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-21 23:36:49.605][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 23:36:49.607][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 23:36:49.609][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-21 23:36:49.611][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-21 23:36:49.612][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-21 23:36:49.614][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-21 23:36:49.616][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 23:36:49.617][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-21 23:36:49.619][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-21 23:36:49.621][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 23:36:49.622][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-21 23:36:49.625][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-21 23:36:49.627][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-21 23:36:49.628][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-21 23:36:49.630][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-21 23:36:49.632][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-21 23:36:49.633][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-21 23:36:49.635][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-21 23:36:49.637][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-21 23:36:49.639][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-21 23:36:49.641][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-21 23:36:49.643][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-21 23:36:49.644][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-21 23:36:49.646][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-21 23:36:49.648][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-21 23:36:49.649][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-21 23:36:49.651][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-21 23:36:49.652][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-21 23:36:49.654][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-21 23:36:49.656][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-21 23:36:49.657][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-21 23:36:49.659][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-21 23:36:49.660][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-21 23:36:49.662][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-21 23:36:49.664][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-21 23:36:49.666][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-21 23:36:49.668][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-21 23:36:49.671][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-21 23:36:49.674][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-21 23:36:49.676][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-21 23:36:49.679][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-21 23:36:49.682][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-21 23:36:49.685][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-21 23:36:49.687][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-21 23:36:49.690][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-21 23:36:49.692][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-21 23:36:49.695][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-21 23:36:49.698][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-21 23:36:49.700][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-21 23:36:49.703][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-21 23:36:49.705][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-21 23:36:49.708][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-21 23:36:49.710][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-21 23:36:49.713][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-21 23:36:49.715][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-21 23:36:49.718][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-21 23:36:49.720][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-21 23:36:49.723][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 23:36:49.725][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 23:36:49.728][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-21 23:36:49.730][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-21 23:36:49.733][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-21 23:36:49.736][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-21 23:36:49.738][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-21 23:36:49.741][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-21 23:36:49.744][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-21 23:36:49.746][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-21 23:36:49.749][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-21 23:36:49.753][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-21 23:36:49.756][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-21 23:36:49.759][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-21 23:36:49.761][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-21 23:36:49.763][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-21 23:36:49.764][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-21 23:36:49.805][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-21 23:36:49.807][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-21 23:36:49.811][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:36:49.812][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.814][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.815][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.827][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.DEBUG[2024-05-21 23:36:49.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.836][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.844][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.853][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.861][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.869][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.878][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.896][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.909][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.921][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[2024-05-21 23:36:49.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.933][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[2024-05-21 23:36:49.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.946][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.958][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.971][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.980][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.989][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:49.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:36:49.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:49.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:49.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:49.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:49.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:49.996][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[2024-05-21 23:36:49.999][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.19-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-05-21 23:36:50.009][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-05-21 23:36:50.011][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:50.012][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-21 23:36:50.014][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:50.015][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:36:50.016][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:50.017][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:36:50.018][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:50.020][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-05-21 23:36:50.021][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-21 23:36:50.023][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:36:50.024][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:50.025][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-05-21 23:36:50.026][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-05-21 23:36:50.028][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-05-21 23:36:50.029][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-21 23:36:50.031][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:36:50.031][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:36:50.031][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:36:50.032][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-21 23:36:50.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:50.034][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:50.035][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:36:50.037][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:36:50.038][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:36:50.039][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:36:50.040][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:36:50.040][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-05-21 23:36:50.041][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:36:50.043][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:36:50.044][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-21 23:36:50.045][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-05-21 23:36:50.045][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-05-21 23:36:50.051][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 23:36:50.053][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 23:36:50.055][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-05-21 23:36:50.056][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 23:36:50.058][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 23:36:50.060][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 23:36:50.089][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-05-21 23:36:50.091][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-05-21 23:36:50.095][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-05-21 23:36:50.099][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-05-21 23:36:50.103][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 23:36:50.104][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 23:36:50.106][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-05-21 23:36:50.107][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-05-21 23:36:50.117][biodb::testThat]
biodb.INFO [2024-05-21 23:36:50.118][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-05-21 23:36:50.119][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:50.121][biodb::testThat]
biodb.TRACE[2024-05-21 23:36:50.126][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.19-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-05-21 23:36:50.128][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:36:50.131][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:36:50.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:36:50.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:50.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:50.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:50.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:50.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:50.843][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[2024-05-21 23:36:50.851][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:50.853][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:50.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.855][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:50.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:50.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.875][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:50.877][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:50.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.880][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.906][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:50.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:50.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.912][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:50.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:50.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.915][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.917][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:50.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:50.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.923][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:50.924][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:50.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.927][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:50.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:50.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.934][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:50.935][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:50.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.937][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:50.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:50.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.944][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:50.946][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:50.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.948][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.950][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:50.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:50.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.955][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:36:50.957][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:50.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.959][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.961][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:36:50.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:50.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.966][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:50.968][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:50.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.971][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:50.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:50.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.978][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:50.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:50.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.982][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:50.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:50.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.991][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:36:50.992][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:50.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:50.994][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:50.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:36:50.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:50.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.001][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:51.003][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:51.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.005][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.007][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:51.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:51.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:51.145][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-05-21 23:36:51.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:51.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:51.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:51.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:51.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.221][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 23:36:51.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 23:36:51.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.231][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 23:36:51.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 23:36:51.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.238][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-21 23:36:51.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-21 23:36:51.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.246][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-21 23:36:51.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-21 23:36:51.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.454][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.456][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.459][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:51.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:51.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.505][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.506][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:51.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:51.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:51.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:51.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:51.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.557][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:51.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:51.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.564][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:51.566][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:51.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.568][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:51.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:51.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.594][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:51.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:51.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.601][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:51.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:51.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:51.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:51.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.612][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:51.614][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:51.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.617][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.618][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:51.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:51.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.658][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.659][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.662][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:51.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.697][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.700][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:51.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.722][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:51.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:51.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.731][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:51.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:51.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.739][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:51.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:51.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.746][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:51.748][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:51.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.751][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.752][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:51.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:51.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.784][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.795][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.800][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.810][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.812][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.815][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.816][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:51.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.842][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.849][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.859][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.861][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.862][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.863][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.864][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:51.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:51.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:51.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.895][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:51.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:51.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:51.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:51.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.905][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:51.906][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:51.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.909][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.910][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:51.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:51.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.956][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.957][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.960][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:51.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:51.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:51.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:51.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:51.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:51.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:51.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:52.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:52.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.010][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:52.012][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:52.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.018][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:52.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:52.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.048][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.050][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.054][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.077][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:52.078][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:52.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.081][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.095][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:52.097][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:52.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.099][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.112][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:52.114][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:52.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.116][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.124][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:52.125][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:52.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.128][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.135][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:52.137][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:52.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.139][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.156][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:52.158][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:52.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.162][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.218][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:52.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:52.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.222][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.230][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-05-21 23:36:52.231][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:52.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.234][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.340][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:52.343][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:52.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.347][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.370][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:52.372][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:52.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.376][ef$get] fields variable is a list.
biodb.INFO [2024-05-21 23:36:52.404][biodb::testThat]
biodb.INFO [2024-05-21 23:36:52.406][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-05-21 23:36:52.408][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:52.410][biodb::testThat]
biodb.DEBUG[2024-05-21 23:36:52.433][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-05-21 23:36:52.444][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:36:52.453][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-05-21 23:36:52.456][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:36:52.460][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-05-21 23:36:52.463][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:36:52.500][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:36:52.503][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:36:52.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:36:52.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:52.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:52.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:52.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:52.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:52.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:36:52.550][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.552][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.556][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.593][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:52.596][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:52.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.600][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.603][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:52.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:52.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.611][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:52.613][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:52.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.617][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.620][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:52.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:52.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.628][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:52.630][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:52.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.634][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:52.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:52.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.645][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:52.647][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:52.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.651][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:52.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:52.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.662][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:52.664][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:52.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.668][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.671][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:52.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:52.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.679][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:36:52.681][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:52.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.685][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.688][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:36:52.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:52.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.696][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:52.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:52.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.702][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:52.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:52.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.713][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:52.715][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:52.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.719][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:52.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:52.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.730][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:36:52.732][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:52.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.736][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.738][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:36:52.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:52.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.746][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:52.749][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:52.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.752][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.755][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:52.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:52.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:52.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:52.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:52.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:52.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:52.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:52.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:52.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:52.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:52.850][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-05-21 23:36:52.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-05-21 23:36:52.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-05-21 23:36:52.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-05-21 23:36:52.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-05-21 23:36:52.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-05-21 23:36:52.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-05-21 23:36:52.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 23:36:52.905][biodb::testThat]
biodb.INFO [2024-05-21 23:36:52.906][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-05-21 23:36:52.908][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:52.909][biodb::testThat]
biodb.TRACE[2024-05-21 23:36:52.913][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:52.914][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:52.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.917][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:52.919][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-05-21 23:36:52.988][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:52.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:52.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:52.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:52.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:52.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:53.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:53.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:53.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:53.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:53.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:53.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:53.019][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-05-21 23:36:53.026][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-05-21 23:36:53.060][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:36:53.094][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-05-21 23:36:53.098][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:36:53.101][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-05-21 23:36:53.140][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[2024-05-21 23:36:53.146][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:36:53.148][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:36:53.150][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:36:53.793][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:36:54.316][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:36:54.320][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-05-21 23:36:54.335][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-05-21 23:36:54.340][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-05-21 23:36:54.371][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:54.373][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:54.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.376][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.377][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.378][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.381][ef$get] fields variable is a list.
biodb.INFO [2024-05-21 23:36:54.388][biodb::testThat]
biodb.INFO [2024-05-21 23:36:54.390][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-05-21 23:36:54.393][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:54.395][biodb::testThat]
biodb.TRACE[2024-05-21 23:36:54.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:54.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:54.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.467][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:54.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:54.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.482][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:54.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:54.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:54.548][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:36:54.552][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:36:54.554][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-05-21 23:36:54.556][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:36:54.564][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-05-21 23:36:54.606][biodb::testThat]
biodb.INFO [2024-05-21 23:36:54.608][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-05-21 23:36:54.611][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:54.613][biodb::testThat]
biodb.TRACE[2024-05-21 23:36:54.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:54.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:54.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:54.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:54.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:54.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:54.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:54.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:54.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.720][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 23:36:54.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 23:36:54.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.728][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 23:36:54.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 23:36:54.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.737][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-21 23:36:54.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-21 23:36:54.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.745][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-21 23:36:54.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-21 23:36:54.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:54.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:54.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:54.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:54.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:54.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:54.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:54.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:54.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:54.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.822][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 23:36:54.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 23:36:54.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.829][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-21 23:36:54.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-21 23:36:54.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.837][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-21 23:36:54.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-21 23:36:54.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:54.848][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-21 23:36:54.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-21 23:36:54.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:54.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 23:36:54.874][biodb::testThat]
biodb.INFO [2024-05-21 23:36:54.876][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-05-21 23:36:54.877][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:54.878][biodb::testThat]
biodb.INFO [2024-05-21 23:36:54.960][biodb::testThat]
biodb.INFO [2024-05-21 23:36:54.961][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-05-21 23:36:54.963][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:54.964][biodb::testThat]
biodb.INFO [2024-05-21 23:36:54.991][biodb::testThat]
biodb.INFO [2024-05-21 23:36:54.993][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-05-21 23:36:54.995][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:54.997][biodb::testThat]
biodb.DEBUG[2024-05-21 23:36:55.004][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-05-21 23:36:55.486][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-05-21 23:36:56.369][biodb::testThat]
biodb.INFO [2024-05-21 23:36:56.370][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-05-21 23:36:56.372][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:56.374][biodb::testThat]
biodb.DEBUG[2024-05-21 23:36:56.760][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[2024-05-21 23:36:57.156][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:57.158][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:57.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.160][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:57.161][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:57.163][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:57.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.165][ef$get] fields variable is a list.
biodb.INFO [2024-05-21 23:36:57.168][biodb::testThat]
biodb.INFO [2024-05-21 23:36:57.169][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-05-21 23:36:57.170][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:36:57.172][biodb::testThat]
biodb.TRACE[2024-05-21 23:36:57.218][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:57.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:57.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:57.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:57.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:57.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:57.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:57.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:57.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:57.345][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:36:57.349][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:36:57.351][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-05-21 23:36:57.352][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:36:57.355][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-05-21 23:36:57.430][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:36:57.434][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:36:57.436][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-05-21 23:36:57.438][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:36:57.440][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-05-21 23:36:57.477][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 23:36:57.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 23:36:57.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:57.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:57.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:57.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:57.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:57.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:57.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:57.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:57.531][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:36:57.553][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:36:57.554][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:36:57.569][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:36:57.915][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:36:58.267][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:36:58.270][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-05-21 23:36:58.276][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-05-21 23:36:58.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:36:58.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:58.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:58.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:58.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:58.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:58.311][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:36:58.313][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-05-21 23:36:58.365][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:36:58.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-05-21 23:36:58.370][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:36:58.371][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:36:58.373][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:36:58.374][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:36:58.376][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:36:58.377][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:36:58.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:36:58.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:58.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:58.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:58.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:58.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:58.405][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[2024-05-21 23:36:58.407][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-05-21 23:36:58.411][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:36:58.412][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:36:58.413][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-05-21 23:36:58.757][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-05-21 23:36:59.100][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:36:59.103][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-05-21 23:36:59.109][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-05-21 23:36:59.114][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-05-21 23:36:59.116][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:36:59.118][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:36:59.120][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:36:59.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:36:59.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:36:59.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:36:59.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:36:59.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:36:59.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:36:59.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:36:59.170][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.176][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.186][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:59.188][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:59.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.204][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.206][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:36:59.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:36:59.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.214][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:59.216][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:59.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.218][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.221][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:36:59.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:36:59.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.226][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:59.228][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:59.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.230][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:36:59.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:36:59.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:59.238][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:59.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.241][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:36:59.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:36:59.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.248][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:59.249][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:36:59.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.252][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.254][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:36:59.255][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:59.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.257][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.259][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:36:59.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:59.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.265][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:59.266][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:59.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.268][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:59.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:36:59.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.276][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:59.277][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:59.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.280][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:36:59.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:36:59.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.287][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:36:59.288][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:59.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.291][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.292][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:36:59.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:36:59.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.298][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:59.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:59.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.302][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.303][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:36:59.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:36:59.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:59.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:59.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:59.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:59.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:36:59.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:36:59.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:36:59.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:36:59.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:59.368][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-05-21 23:36:59.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:59.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:59.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:59.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:59.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:36:59.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:59.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:36:59.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:36:59.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:36:59.395][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[2024-05-21 23:36:59.401][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:36:59.402][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:36:59.405][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:36:59.753][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:00.096][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:00.099][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-05-21 23:37:00.105][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-05-21 23:37:00.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:00.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:00.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:00.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:00.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:00.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:00.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:00.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:00.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:00.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:00.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:00.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:00.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:00.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:00.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:00.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:00.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:00.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:00.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:00.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:00.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:00.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:00.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:00.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:00.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:00.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:00.203][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-05-21 23:37:00.204][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:00.206][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-05-21 23:37:00.208][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:00.209][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:00.211][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:00.212][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:00.213][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:00.215][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:00.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:00.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:00.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:00.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:00.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:00.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:00.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:00.255][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-05-21 23:37:00.258][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:00.260][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:00.261][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-05-21 23:37:00.615][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-05-21 23:37:00.965][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:00.968][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-05-21 23:37:00.975][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-05-21 23:37:00.981][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-05-21 23:37:00.984][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:00.986][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:00.988][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:00.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:00.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:00.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:01.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:01.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:01.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:01.017][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:01.019][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.021][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.030][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.037][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:01.038][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:01.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.041][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.042][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:01.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:01.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.048][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:01.049][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:01.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.051][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.053][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:01.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:01.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.058][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:01.060][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:01.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.062][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:01.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:01.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:01.070][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:01.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.074][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:01.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:01.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.084][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:01.086][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:01.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.090][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.092][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:01.094][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.098][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.100][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:01.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.108][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:01.110][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:01.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.114][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:01.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:01.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.124][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:01.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:01.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.130][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:01.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:01.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.141][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:01.143][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:01.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.146][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.149][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:01.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:01.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.157][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:01.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:01.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.162][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.165][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:01.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:01.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:01.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:01.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:01.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:01.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:01.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:01.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:01.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:01.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:01.248][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-05-21 23:37:01.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:01.313][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:01.318][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:01.319][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-05-21 23:37:01.321][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:01.324][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-05-21 23:37:01.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:01.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:01.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:01.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:01.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:01.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:01.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:01.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:01.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:01.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:01.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:01.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:01.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:01.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:01.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:01.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:01.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:01.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:01.404][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-05-21 23:37:01.406][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:01.408][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-05-21 23:37:01.409][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:01.411][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:01.412][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:01.413][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:01.415][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:01.416][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:01.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:01.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:01.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:01.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:01.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:01.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:01.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:01.446][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-05-21 23:37:01.449][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:01.450][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:01.452][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-05-21 23:37:01.795][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-05-21 23:37:02.148][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:02.152][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-05-21 23:37:02.159][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-05-21 23:37:02.164][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-05-21 23:37:02.167][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:02.169][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:02.171][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:02.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:02.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:02.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:02.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:02.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:02.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:02.196][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:02.199][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.200][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.203][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.210][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:02.212][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:02.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.215][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.216][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:02.218][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:02.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.220][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.222][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:02.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:02.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.226][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:02.229][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:02.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.231][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.233][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:02.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:02.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.236][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.238][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:02.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.250][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.252][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:02.254][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:02.255][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.257][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.258][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:02.259][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:02.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.262][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.264][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:02.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:02.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.269][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:02.270][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:02.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.273][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.274][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:02.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:02.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.280][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:02.281][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:02.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.283][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:02.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:02.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:02.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:02.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:02.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:02.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:02.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:02.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:02.343][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-05-21 23:37:02.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:02.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:02.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:02.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:02.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:02.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:02.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:02.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:02.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:02.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:02.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:02.404][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-05-21 23:37:02.406][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:02.408][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-05-21 23:37:02.410][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:02.411][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:02.413][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:02.414][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:02.415][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:02.417][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:02.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:02.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:02.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:02.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:02.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:02.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:02.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:02.450][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-05-21 23:37:02.454][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:02.456][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:02.457][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-05-21 23:37:02.802][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-05-21 23:37:03.152][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:03.155][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-05-21 23:37:03.160][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-05-21 23:37:03.165][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-05-21 23:37:03.168][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:03.170][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:03.173][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:03.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:03.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:03.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:03.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:03.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:03.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:03.191][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:03.195][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.197][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.200][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.208][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:03.209][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:03.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.211][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.213][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:03.214][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:03.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.217][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.218][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:03.220][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:03.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.222][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.224][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:03.226][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:03.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.229][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.230][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:03.231][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:03.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.234][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.235][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:03.237][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.240][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:03.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:03.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.246][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.252][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:03.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:03.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.258][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:03.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:03.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.265][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:03.267][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:03.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.269][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.270][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:03.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:03.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.276][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:03.277][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:03.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.279][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:03.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:03.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:03.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:03.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:03.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:03.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:03.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:03.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:03.333][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-05-21 23:37:03.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:03.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:03.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:03.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:03.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:03.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:03.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:03.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:03.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:03.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:03.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:03.400][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-05-21 23:37:03.401][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:03.408][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-05-21 23:37:03.410][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:03.412][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:03.413][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:03.414][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:03.416][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:03.417][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:03.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:03.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:03.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:03.442][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:03.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:03.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:03.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:03.447][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-05-21 23:37:03.451][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:03.452][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:03.453][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-05-21 23:37:03.802][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-05-21 23:37:04.147][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:04.151][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-05-21 23:37:04.158][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-05-21 23:37:04.164][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-05-21 23:37:04.168][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:04.170][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:04.172][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:04.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:04.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:04.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:04.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:04.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:04.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:04.205][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.TRACE[2024-05-21 23:37:04.210][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.212][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.216][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.227][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:04.230][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:04.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.233][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.236][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:04.238][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:04.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.242][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.245][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:04.247][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:04.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.251][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.253][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:04.255][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:04.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.259][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.262][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:04.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:04.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.267][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.270][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:04.272][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.276][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.278][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:04.280][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:04.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.284][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.291][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:04.293][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:04.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.297][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:04.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:04.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.322][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:04.325][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:04.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.329][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.331][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:04.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:04.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.338][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:04.339][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:04.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.342][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:04.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:04.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:04.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:04.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:04.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:04.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:04.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:04.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:04.398][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-05-21 23:37:04.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:04.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:04.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:04.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:04.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:04.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:04.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:04.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:04.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:04.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:04.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:04.440][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-05-21 23:37:04.441][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:04.444][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-05-21 23:37:04.445][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:04.447][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:04.448][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:04.455][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:04.457][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:04.459][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:04.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:04.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:04.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:04.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:04.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:04.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:04.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:04.477][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-05-21 23:37:04.481][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:04.482][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:04.484][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-05-21 23:37:04.845][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-05-21 23:37:05.202][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:05.207][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-05-21 23:37:05.214][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-05-21 23:37:05.221][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-05-21 23:37:05.225][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:05.228][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:05.231][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:05.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:05.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:05.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:05.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:05.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:05.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:05.260][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:05.263][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.264][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.266][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.273][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:05.274][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:05.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.277][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.278][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:05.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:05.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.284][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:05.285][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:05.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.287][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.289][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:05.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:05.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.294][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:05.295][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:05.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.298][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:05.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:05.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.304][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:05.306][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:05.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.308][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:05.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:05.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.315][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:05.316][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:05.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.318][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.320][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:05.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:05.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.336][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:05.337][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:05.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.339][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.341][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:05.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:05.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.347][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:05.348][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:05.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.350][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:05.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:05.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.357][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:05.359][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:05.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.361][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:05.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:05.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.369][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:05.370][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:05.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.373][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.375][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:05.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:05.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:05.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:05.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.386][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:05.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:05.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:05.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:05.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:05.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:05.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:05.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:05.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:05.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:05.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:05.448][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-05-21 23:37:05.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:05.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:05.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:05.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:05.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:05.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:05.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:05.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:05.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:05.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:05.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:05.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:05.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:05.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:05.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:05.497][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-05-21 23:37:05.498][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:05.500][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-05-21 23:37:05.502][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:05.504][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:05.505][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:05.506][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:05.508][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:05.509][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:05.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:05.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:05.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:05.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:05.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:05.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:05.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:05.551][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-05-21 23:37:05.554][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:05.555][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:05.557][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-05-21 23:37:05.898][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-05-21 23:37:06.255][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:06.258][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-05-21 23:37:06.263][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-05-21 23:37:06.268][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-05-21 23:37:06.270][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:06.272][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:06.274][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:06.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:06.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:06.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:06.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:06.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:06.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:06.300][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:06.303][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.304][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.307][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.313][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:06.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:06.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.317][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.319][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:06.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:06.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.324][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:06.326][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:06.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.329][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.331][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:06.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:06.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.336][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:06.338][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:06.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.348][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:06.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:06.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.355][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:06.357][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:06.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.359][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:06.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:06.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.366][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:06.368][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:06.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.371][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.372][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:06.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:06.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.378][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:06.379][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:06.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.381][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.383][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:06.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:06.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.389][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:06.390][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:06.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.392][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:06.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:06.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.399][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:06.401][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:06.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.403][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:06.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:06.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.410][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:06.412][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:06.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.414][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.416][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:06.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:06.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.421][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:06.423][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:06.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.425][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.427][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:06.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:06.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:06.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:06.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:06.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:06.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:06.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:06.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:06.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:06.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:06.492][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-05-21 23:37:06.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:06.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:06.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:06.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:06.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:06.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:06.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:06.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:06.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:06.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:06.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:06.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:06.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:06.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:06.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:06.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:06.533][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-05-21 23:37:06.534][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:06.536][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-05-21 23:37:06.538][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:06.539][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:06.541][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:06.542][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:06.543][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:06.544][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:06.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:06.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:06.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:06.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:06.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:06.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:06.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:06.574][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-05-21 23:37:06.578][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:06.580][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:06.582][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-05-21 23:37:06.928][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-05-21 23:37:07.279][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:07.283][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-05-21 23:37:07.291][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-05-21 23:37:07.298][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-05-21 23:37:07.302][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:07.305][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:07.308][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:07.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:07.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:07.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:07.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:07.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:07.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:07.338][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:07.341][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.342][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.345][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.359][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:07.361][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:07.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.363][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.365][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:07.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:07.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.370][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:07.372][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:07.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.374][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.376][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:07.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:07.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.381][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:07.382][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:07.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.385][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:07.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:07.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.392][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:07.393][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:07.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.396][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:07.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:07.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.403][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:07.404][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:07.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.406][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.408][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:07.409][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:07.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.412][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.413][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:07.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:07.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.419][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:07.421][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:07.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.424][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:07.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:07.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.431][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:07.432][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:07.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.435][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:07.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:07.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.443][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:07.445][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:07.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.447][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.449][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:07.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:07.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.454][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:07.456][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:07.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.458][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.460][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:07.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:07.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:07.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:07.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:07.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:07.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:07.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:07.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:07.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:07.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:07.531][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-05-21 23:37:07.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:07.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:07.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:07.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:07.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:07.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:07.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:07.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:07.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:07.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:07.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:07.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:07.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:07.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:07.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:07.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:07.594][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-05-21 23:37:07.596][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:07.598][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-05-21 23:37:07.599][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:07.601][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:07.602][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:07.604][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:07.606][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:07.607][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:07.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:07.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:07.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:07.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:07.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:07.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:07.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:07.632][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-05-21 23:37:07.635][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:07.636][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:07.638][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-05-21 23:37:07.991][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-05-21 23:37:08.338][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:08.342][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-05-21 23:37:08.350][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-05-21 23:37:08.357][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-05-21 23:37:08.361][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:08.364][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:08.367][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:08.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:08.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:08.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:08.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:08.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:08.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:08.405][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.TRACE[2024-05-21 23:37:08.410][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.412][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.416][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.428][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:08.430][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:08.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.434][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.436][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:08.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:08.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.445][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:08.447][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:08.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.451][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:08.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:08.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.462][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:08.464][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:08.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.468][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:08.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:08.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.479][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:08.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:08.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.484][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:08.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:08.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.495][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:08.498][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:08.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.503][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.506][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:08.508][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:08.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.512][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.515][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:08.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:08.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.524][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:08.526][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:08.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.530][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:08.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:08.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.542][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:08.544][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:08.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.548][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:08.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:08.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.560][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:08.562][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:08.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.566][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.569][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:08.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:08.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.577][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:08.580][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:08.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.593][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.597][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:08.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:08.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:08.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:08.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:08.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:08.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:08.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:08.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:08.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:08.685][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-05-21 23:37:08.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:08.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:08.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:08.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:08.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:08.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:08.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:08.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:08.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:08.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:08.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:08.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:08.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:08.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:08.732][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-05-21 23:37:08.733][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:08.735][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-05-21 23:37:08.737][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:08.739][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:08.740][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:08.742][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:08.743][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:08.745][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:08.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:08.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:08.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:08.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:08.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:08.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:08.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:08.801][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-05-21 23:37:08.810][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:08.812][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:08.814][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-05-21 23:37:09.158][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-05-21 23:37:09.514][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:09.518][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-05-21 23:37:09.526][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-05-21 23:37:09.531][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-05-21 23:37:09.535][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:09.538][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:09.540][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:09.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:09.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:09.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:09.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:09.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:09.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:09.570][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:09.575][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.577][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.581][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.592][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:09.594][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:09.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.598][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.601][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:09.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:09.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.609][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:09.611][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:09.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.615][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.618][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:09.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:09.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:09.628][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:09.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.632][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:09.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:09.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.643][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:09.646][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:09.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.649][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:09.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:09.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.660][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:09.663][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:09.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.667][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.669][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:09.671][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:09.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.674][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.676][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:09.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:09.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.683][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:09.684][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:09.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.687][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:09.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:09.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.694][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:09.702][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:09.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.705][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:09.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:09.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.713][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:09.714][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:09.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.716][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.718][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:09.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:09.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.723][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:09.725][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:09.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.727][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.729][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:09.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:09.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:09.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:09.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:09.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:09.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:09.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:09.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:09.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:09.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:09.798][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-05-21 23:37:09.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:09.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:09.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:09.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:09.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:09.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:09.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:09.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:09.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:09.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:09.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:09.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:09.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:09.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:09.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:09.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:09.832][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-05-21 23:37:09.833][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:09.835][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-05-21 23:37:09.837][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:09.844][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:09.846][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:09.848][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:09.850][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:09.851][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:09.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:09.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:09.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:09.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:09.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:09.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:09.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:09.876][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-05-21 23:37:09.879][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:09.881][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:09.883][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-05-21 23:37:10.233][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-05-21 23:37:10.580][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:10.584][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-05-21 23:37:10.592][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-05-21 23:37:10.598][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-05-21 23:37:10.603][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:10.605][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:10.608][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:10.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:10.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:10.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:10.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:10.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:10.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:10.639][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[2024-05-21 23:37:10.644][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.646][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.650][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.661][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:10.663][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:10.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.667][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.669][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:10.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:10.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.677][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:10.680][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:10.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.684][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:10.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:10.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:10.693][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:10.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.695][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:10.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:10.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.706][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:10.708][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:10.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.712][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:10.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:10.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.721][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:10.724][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:10.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.740][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.743][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:10.747][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:10.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.751][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.753][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.759][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:10.761][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:10.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.765][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:10.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:10.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.775][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:10.778][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:10.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.780][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:10.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:10.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:10.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:10.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.798][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.800][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:10.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:10.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.806][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:10.808][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:10.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.811][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.812][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:10.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:10.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:10.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:10.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:10.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:10.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:10.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:10.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:10.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:10.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:10.888][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-05-21 23:37:10.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:10.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:10.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:10.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:10.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:10.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:10.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:10.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:10.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:10.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:10.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:10.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:10.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:10.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:10.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:10.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:10.938][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-05-21 23:37:10.940][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:10.944][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-05-21 23:37:10.947][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:10.949][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:10.950][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:10.952][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:10.953][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:10.954][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:10.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:10.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:10.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:10.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:10.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:10.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:10.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:10.979][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-05-21 23:37:10.984][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:10.985][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:10.988][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-05-21 23:37:11.335][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-05-21 23:37:11.683][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:11.687][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-05-21 23:37:11.695][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-05-21 23:37:11.701][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-05-21 23:37:11.706][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:11.708][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:11.710][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:11.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:11.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:11.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:11.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:11.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:11.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:11.731][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.TRACE[2024-05-21 23:37:11.735][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.738][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.742][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.752][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:11.754][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:11.756][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.758][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.760][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:11.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:11.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.768][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:11.770][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:11.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.773][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:11.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:11.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.789][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:11.791][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:11.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.795][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:11.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:11.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.803][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:11.804][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:11.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.807][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:11.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.814][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:11.815][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:11.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.818][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.820][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:11.821][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:11.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.824][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.825][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:11.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:11.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.831][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:11.832][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:11.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.835][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:11.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:11.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.842][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:11.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:11.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.845][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:11.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:11.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.853][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:11.854][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:11.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.857][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.858][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:11.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:11.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.864][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:11.866][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:11.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.868][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.869][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:11.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:11.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:11.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:11.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:11.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:11.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:11.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:11.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:11.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:11.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:11.950][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-05-21 23:37:11.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:11.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:11.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:11.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:11.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:11.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:11.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:11.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:11.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:11.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:11.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:11.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:11.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:11.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:11.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:11.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:11.988][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-05-21 23:37:11.990][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:11.994][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-05-21 23:37:11.997][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:11.998][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:12.000][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:12.001][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:12.003][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:12.004][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:12.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:12.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:12.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:12.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:12.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:12.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:12.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:12.050][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-05-21 23:37:12.054][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:12.056][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:12.058][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-05-21 23:37:12.404][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-05-21 23:37:12.765][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:12.769][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-05-21 23:37:12.777][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-05-21 23:37:12.782][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-05-21 23:37:12.785][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:12.787][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:12.789][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:12.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:12.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:12.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:12.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:12.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:12.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:12.820][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[2024-05-21 23:37:12.824][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:12.827][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:12.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.831][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:12.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:12.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.855][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:12.858][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:12.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.862][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.865][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:12.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:12.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.874][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:12.877][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:12.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.881][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:12.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:12.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.893][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:12.896][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:12.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.900][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.902][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:12.905][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:12.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.909][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.911][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:12.912][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:12.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.915][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.917][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:12.919][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:12.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.923][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.926][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:12.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:12.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.933][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:12.935][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:12.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.939][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:12.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:12.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.952][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:12.954][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:12.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.959][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.962][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:12.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:12.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.971][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:12.973][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:12.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.977][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.980][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:12.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:12.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.989][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:12.991][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:12.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:12.995][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:12.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:12.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:13.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:13.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:13.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:13.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:13.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:13.071][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-05-21 23:37:13.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:13.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:13.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:13.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:13.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:13.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:13.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:13.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:13.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:13.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:13.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:13.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:13.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:13.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:13.122][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-05-21 23:37:13.124][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:13.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-05-21 23:37:13.130][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:13.131][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:13.133][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:13.134][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:13.136][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:13.138][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:13.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:13.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:13.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:13.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:13.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:13.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:13.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:13.159][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-05-21 23:37:13.163][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:13.165][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:13.168][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-05-21 23:37:13.515][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-05-21 23:37:13.860][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:13.863][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-05-21 23:37:13.868][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-05-21 23:37:13.872][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-05-21 23:37:13.875][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:13.876][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:13.878][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:13.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:13.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:13.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:13.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:13.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:13.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:13.909][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:13.913][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.926][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.931][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:13.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:13.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.938][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:13.940][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:13.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.942][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.944][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:13.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:13.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.951][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:13.953][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:13.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.956][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.958][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:13.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:13.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.963][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:13.965][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:13.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.967][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.969][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:13.970][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:13.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.973][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:13.976][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:13.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.980][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.983][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:13.985][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:13.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.989][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.991][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:13.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:13.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:13.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:13.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:14.000][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:14.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.003][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:14.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:14.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.011][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:14.012][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:14.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.015][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:14.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:14.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.022][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:14.023][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:14.025][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.026][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.027][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:14.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:14.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.033][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:14.035][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:14.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.037][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:14.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:14.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:14.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:14.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:14.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:14.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:14.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:14.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:14.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:14.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:14.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:14.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:14.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:14.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:14.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:14.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:14.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:14.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:14.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:14.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:14.118][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-05-21 23:37:14.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:14.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:14.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:14.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:14.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:14.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:14.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:14.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:14.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:14.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:14.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:14.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:14.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:14.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:14.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:14.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:14.157][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-05-21 23:37:14.159][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:14.161][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-05-21 23:37:14.163][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:14.164][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:14.166][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:14.167][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:14.169][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:14.170][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:14.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:14.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:14.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:14.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:14.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:14.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:14.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:14.191][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-05-21 23:37:14.195][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:14.196][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:14.198][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-05-21 23:37:14.549][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-05-21 23:37:14.896][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:14.899][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-05-21 23:37:14.903][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-05-21 23:37:14.907][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-05-21 23:37:14.910][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:14.911][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:14.913][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:14.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:14.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:14.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:14.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:14.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:14.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:14.991][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:14.995][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:14.998][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.002][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:15.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.013][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:15.015][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:15.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.019][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.022][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:15.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:15.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.030][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:15.033][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:15.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.036][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.039][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:15.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:15.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.047][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:15.049][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:15.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.053][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:15.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:15.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.064][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:15.066][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:15.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.070][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:15.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:15.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:15.083][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:15.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.086][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.089][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:15.091][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:15.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.095][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.097][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:15.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:15.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.105][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:15.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:15.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.111][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:15.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:15.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.122][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:15.124][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:15.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.128][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:15.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:15.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.139][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:15.141][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:15.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.145][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.147][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:15.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:15.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.156][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:15.158][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:15.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.162][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.164][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:15.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:15.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:15.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:15.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:15.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:15.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:15.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:15.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:15.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:15.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:15.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:15.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:15.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:15.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:15.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:15.244][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-05-21 23:37:15.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:15.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:15.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:15.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:15.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:15.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:15.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:15.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:15.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:15.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:15.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:15.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:15.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:15.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:15.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:15.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:15.289][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-05-21 23:37:15.291][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:15.294][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-05-21 23:37:15.297][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:15.300][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:15.302][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:15.304][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:15.306][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:15.308][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:15.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:15.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:15.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:15.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:15.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:15.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:15.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:15.337][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2024-05-21 23:37:15.342][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:15.345][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:15.347][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2024-05-21 23:37:15.697][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2024-05-21 23:37:16.047][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:16.051][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2024-05-21 23:37:16.056][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2024-05-21 23:37:16.061][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2024-05-21 23:37:16.063][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:16.066][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:16.067][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:16.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:16.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:16.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:16.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:16.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:16.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:16.101][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:16.104][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.106][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.109][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.116][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:16.118][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:16.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.120][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.122][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:16.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:16.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.128][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:16.130][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:16.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.133][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:16.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:16.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.142][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:16.143][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:16.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.146][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:16.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:16.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.154][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:16.155][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:16.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.158][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:16.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:16.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.167][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:16.170][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:16.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.174][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.177][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:16.179][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:16.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.182][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.184][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:16.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:16.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.189][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:16.191][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:16.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.193][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:16.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:16.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.201][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:16.202][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:16.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.205][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:16.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:16.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.218][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:16.220][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:16.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.223][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.225][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:16.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:16.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.230][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:16.231][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:16.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.234][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.236][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:16.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:16.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:16.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:16.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:16.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:16.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:16.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:16.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:16.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:16.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:16.294][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-05-21 23:37:16.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:16.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:16.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:16.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:16.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:16.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:16.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:16.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:16.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:16.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:16.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:16.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:16.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:16.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:16.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:16.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:16.330][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-05-21 23:37:16.331][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:16.333][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-05-21 23:37:16.335][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:16.337][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:16.339][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:16.341][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:16.343][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:16.344][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:16.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:16.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:16.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:16.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:16.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:16.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:16.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:16.380][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2024-05-21 23:37:16.383][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:16.384][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:16.386][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2024-05-21 23:37:16.738][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2024-05-21 23:37:17.095][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:17.099][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2024-05-21 23:37:17.107][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2024-05-21 23:37:17.113][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2024-05-21 23:37:17.118][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:17.120][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:17.123][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:17.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:17.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:17.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:17.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:17.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:17.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:17.154][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:17.159][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.161][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.165][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.176][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:17.178][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:17.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.183][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.185][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:17.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:17.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.193][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:17.196][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:17.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.199][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:17.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:17.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.210][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:17.212][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:17.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.216][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:17.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:17.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.227][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:17.229][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:17.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.233][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:17.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:17.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.244][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:17.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:17.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.250][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.253][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:17.255][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:17.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.259][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.261][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:17.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:17.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.282][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:17.284][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:17.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.288][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:17.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:17.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.300][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:17.301][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:17.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.304][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:17.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:17.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.311][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:17.312][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:17.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.315][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.317][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:17.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:17.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.322][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:17.323][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:17.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.326][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.327][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:17.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:17.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:17.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:17.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:17.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:17.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:17.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:17.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:17.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:17.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:17.391][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-05-21 23:37:17.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:17.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:17.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:17.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:17.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:17.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:17.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:17.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:17.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:17.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:17.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:17.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:17.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:17.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:17.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:17.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:17.462][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-05-21 23:37:17.463][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:17.465][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-05-21 23:37:17.467][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:17.468][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:17.470][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:17.471][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:17.472][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:17.474][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:17.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:17.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:17.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:17.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:17.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:17.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:17.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:17.492][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-05-21 23:37:17.495][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:17.496][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:17.498][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-05-21 23:37:17.847][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-05-21 23:37:18.190][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:18.194][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-05-21 23:37:18.200][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-05-21 23:37:18.204][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-05-21 23:37:18.207][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:18.209][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:18.211][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:18.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:18.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:18.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:18.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:18.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:18.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:18.232][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:18.237][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.239][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.243][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.254][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:18.257][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:18.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.260][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.263][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:18.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:18.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.272][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:18.274][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:18.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.278][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:18.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:18.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.289][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:18.291][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:18.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.295][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:18.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:18.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.319][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:18.322][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:18.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.326][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:18.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:18.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.338][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:18.340][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:18.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.344][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.347][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:18.349][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:18.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.353][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.356][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:18.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:18.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.364][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:18.367][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:18.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.371][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:18.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:18.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.382][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:18.385][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:18.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.389][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.392][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:18.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:18.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.400][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:18.403][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:18.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.407][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.410][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:18.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:18.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.418][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:18.421][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:18.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.425][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.428][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:18.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:18.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:18.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:18.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:18.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:18.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:18.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:18.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:18.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:18.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:18.507][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-05-21 23:37:18.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:18.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:18.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:18.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:18.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:18.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:18.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:18.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:18.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:18.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:18.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:18.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:18.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:18.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:18.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:18.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:18.548][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-05-21 23:37:18.550][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:18.553][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-05-21 23:37:18.556][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:18.559][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:18.561][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:18.563][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:18.565][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:18.567][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:18.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:18.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:18.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:18.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:18.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:18.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:18.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:18.598][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2024-05-21 23:37:18.603][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:18.605][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:18.608][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-05-21 23:37:18.962][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-05-21 23:37:19.315][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:19.320][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-05-21 23:37:19.328][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-05-21 23:37:19.334][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-05-21 23:37:19.338][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:19.341][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:19.344][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:19.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:19.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:19.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:19.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:19.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:19.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:19.371][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:19.375][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.376][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.379][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.392][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:19.394][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:19.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.405][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.407][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:19.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:19.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.413][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:19.414][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:19.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.417][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.419][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:19.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:19.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.427][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:19.429][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:19.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.433][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:19.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:19.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.445][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:19.447][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:19.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.449][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:19.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:19.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.457][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:19.459][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:19.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.461][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.463][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:19.464][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:19.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.467][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.468][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:19.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:19.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.474][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:19.475][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:19.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.478][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:19.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:19.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.487][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:19.488][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:19.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.490][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:19.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:19.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.500][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:19.502][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:19.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.506][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.508][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:19.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:19.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.515][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:19.517][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:19.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.519][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.521][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:19.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:19.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:19.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:19.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:19.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:19.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:19.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:19.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:19.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:19.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:19.596][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-05-21 23:37:19.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:19.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:19.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:19.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:19.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:19.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:19.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:19.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:19.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:19.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:19.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:19.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:19.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:19.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:19.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:19.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:19.646][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-05-21 23:37:19.647][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:19.649][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-05-21 23:37:19.651][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:19.652][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:19.654][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:19.655][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:19.656][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:19.657][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:19.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:19.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:19.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:19.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:19.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:19.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:19.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:19.676][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-05-21 23:37:19.679][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:19.680][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:19.682][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-05-21 23:37:20.029][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-05-21 23:37:20.374][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:20.379][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-05-21 23:37:20.386][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-05-21 23:37:20.392][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-05-21 23:37:20.395][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:20.398][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:20.400][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:20.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:20.412][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:20.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:20.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:20.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:20.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:20.427][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:20.431][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.433][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.443][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.451][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:20.452][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:20.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.455][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.457][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:20.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:20.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.465][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:20.468][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:20.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.471][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.473][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:20.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:20.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.481][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:20.483][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:20.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.486][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:20.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:20.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.493][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:20.494][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:20.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.497][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:20.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:20.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.504][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:20.506][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:20.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.510][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.512][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:20.515][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:20.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.519][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.521][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:20.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:20.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.531][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:20.533][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:20.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.538][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:20.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:20.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.549][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:20.551][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:20.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.553][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:20.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:20.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.565][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:20.568][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:20.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.571][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.573][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:20.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:20.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.579][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:20.588][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:20.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.591][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.593][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:20.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:20.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:20.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:20.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:20.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:20.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:20.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:20.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:20.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:20.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:20.657][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-05-21 23:37:20.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:20.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:20.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:20.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:20.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:20.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:20.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:20.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:20.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:20.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:20.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:20.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:20.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:20.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:20.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:20.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:20.697][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-05-21 23:37:20.698][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:20.700][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-05-21 23:37:20.702][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:20.703][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:20.705][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:20.706][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:20.707][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:20.709][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:20.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:20.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:20.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:20.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:20.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:20.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:20.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:20.740][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-05-21 23:37:20.744][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:20.746][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:20.751][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-05-21 23:37:21.105][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-05-21 23:37:21.457][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:21.461][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-05-21 23:37:21.468][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-05-21 23:37:21.475][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-05-21 23:37:21.478][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:21.481][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:21.482][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:21.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:21.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:21.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:21.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:21.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:21.498][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:21.500][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:21.503][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.505][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.507][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.515][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:21.517][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:21.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.519][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.521][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:21.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:21.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.527][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:21.528][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:21.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.530][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:21.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:21.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.539][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:21.540][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:21.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.543][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:21.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:21.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.551][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:21.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:21.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.555][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:21.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:21.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.563][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:21.565][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:21.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.568][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.569][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:21.571][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.573][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.575][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:21.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.581][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:21.583][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:21.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.586][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:21.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:21.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.605][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:21.607][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:21.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.609][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.611][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:21.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:21.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.618][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:21.621][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:21.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.625][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.627][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:21.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:21.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.634][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:21.635][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:21.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.638][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.640][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:21.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:21.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:21.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:21.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:21.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:21.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:21.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:21.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:21.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:21.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:21.718][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-05-21 23:37:21.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:21.803][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:21.809][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:21.812][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-05-21 23:37:21.815][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:21.818][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-05-21 23:37:21.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:21.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:21.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:21.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:21.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:21.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:21.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:21.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:21.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:21.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:21.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:21.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:21.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:21.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:21.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:21.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:21.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:21.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:21.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:21.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:21.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:21.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:21.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:21.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:21.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:21.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:21.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.174][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:22.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:22.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:22.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:22.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:22.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:22.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:22.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:22.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:22.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:22.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:22.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:22.982][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:22.986][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:22.987][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:22.990][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:23.346][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:23.700][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:23.704][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-05-21 23:37:23.712][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-05-21 23:37:23.717][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[2024-05-21 23:37:23.721][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:23.724][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:23.727][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:24.077][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:24.423][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:24.427][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-05-21 23:37:24.433][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-05-21 23:37:24.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:24.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:24.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:24.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:24.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:24.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:24.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:24.564][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-05-21 23:37:24.567][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:24.571][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-05-21 23:37:24.573][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:24.576][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:24.578][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:24.580][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:24.582][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:24.584][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:24.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:24.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:24.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:24.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:24.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:24.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:24.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:24.616][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-05-21 23:37:24.621][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:24.623][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:24.624][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-05-21 23:37:24.979][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-05-21 23:37:25.341][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:25.344][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-05-21 23:37:25.349][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-05-21 23:37:25.354][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-05-21 23:37:25.357][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:25.359][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:25.361][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:25.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:25.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:25.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:25.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:25.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:25.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:25.391][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[2024-05-21 23:37:25.394][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.396][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.400][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.411][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:25.412][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:25.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.414][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.416][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:25.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:25.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.424][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:25.426][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:25.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.428][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:25.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:25.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.436][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:25.437][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:25.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.439][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:25.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:25.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.449][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:25.451][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:25.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.453][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:25.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:25.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.460][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:25.463][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:25.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.465][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.467][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:25.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:25.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.472][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:25.474][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:25.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.476][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.478][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:25.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:25.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.483][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.484][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.486][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.487][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.494][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:25.496][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:25.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.498][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.500][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:25.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:25.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.508][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:25.510][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:25.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.512][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.514][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:25.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:25.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.522][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:25.524][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:25.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.528][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.530][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:25.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:25.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:25.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:25.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:25.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:25.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:25.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:25.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:25.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:25.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:25.593][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-05-21 23:37:25.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:25.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:25.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:25.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:25.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:25.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:25.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:25.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:25.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:25.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:25.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:25.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:25.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:25.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:25.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:25.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:25.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:25.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:25.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:25.717][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-05-21 23:37:25.718][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:25.721][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-05-21 23:37:25.727][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:25.730][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:25.732][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:25.734][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:25.737][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:25.739][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:25.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:25.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:25.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:25.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:25.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:25.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:25.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:25.771][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-05-21 23:37:25.774][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:25.776][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:25.778][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-05-21 23:37:26.132][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-05-21 23:37:26.486][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:26.489][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-05-21 23:37:26.495][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-05-21 23:37:26.500][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-05-21 23:37:26.502][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:26.504][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:26.506][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:26.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:26.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:26.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:26.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:26.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:26.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:26.537][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:26.541][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.542][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.545][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.552][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:26.553][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:26.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.556][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.557][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:26.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:26.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.563][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:26.564][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:26.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.567][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:26.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:26.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.574][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:26.575][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:26.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.578][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:26.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:26.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.585][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:26.586][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:26.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.589][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:26.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:26.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.597][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:26.599][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:26.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.603][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.606][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:26.608][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:26.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.611][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.614][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:26.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:26.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.623][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.624][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.629][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.640][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:26.642][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:26.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.646][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:26.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:26.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.658][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:26.660][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:26.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.664][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.667][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:26.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:26.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.676][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:26.678][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:26.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.682][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.685][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:26.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:26.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:26.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:26.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:26.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:26.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:26.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:26.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:26.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:26.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:26.751][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-05-21 23:37:26.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:26.829][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:26.834][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:26.836][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-05-21 23:37:26.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:26.840][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-05-21 23:37:26.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:26.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:26.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:26.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:26.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:26.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:26.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:26.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:26.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:26.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:26.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:26.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:26.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:26.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:26.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:26.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:26.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:26.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:26.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:26.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:26.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:26.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:26.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:26.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:26.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:26.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:26.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:27.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:27.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:27.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:27.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:27.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:27.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:27.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:27.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:27.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:27.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:27.742][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.INFO [2024-05-21 23:37:27.745][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2024-05-21 23:37:27.748][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:27.749][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:27.751][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:28.245][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:28.787][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:28.791][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-05-21 23:37:28.799][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-05-21 23:37:28.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:28.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:28.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:28.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:28.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:28.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:28.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:28.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:28.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:28.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:28.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:28.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:28.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:28.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:28.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:28.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:28.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:28.940][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:28.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:28.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:28.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:28.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:28.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:28.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:28.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:28.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:28.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:28.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:28.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:28.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:29.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:29.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.804][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-05-21 23:37:29.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-05-21 23:37:29.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 23:37:29.837][biodb::testThat]
biodb.INFO [2024-05-21 23:37:29.840][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-05-21 23:37:29.842][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:29.844][biodb::testThat]
biodb.TRACE[2024-05-21 23:37:29.850][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 23:37:29.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 23:37:29.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:29.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:29.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:29.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:29.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:29.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:29.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:29.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:29.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:29.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:29.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:29.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:29.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:29.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:29.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:29.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:29.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:29.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:29.927][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:29.931][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:29.932][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:29.934][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:30.278][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:30.633][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:30.636][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-05-21 23:37:30.641][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-05-21 23:37:30.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:30.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:30.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:30.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:30.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:30.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:30.675][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:30.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:30.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:30.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:30.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:30.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:30.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:30.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:30.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:30.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:30.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:30.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:30.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:30.693][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[2024-05-21 23:37:30.697][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:30.698][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:30.701][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:31.046][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:31.398][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:31.401][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-05-21 23:37:31.407][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-05-21 23:37:31.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:31.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:31.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:31.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:31.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:31.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:31.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:31.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:31.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:31.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:31.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:31.478][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:31.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:31.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:31.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:31.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:31.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:31.502][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-05-21 23:37:31.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:31.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:31.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:31.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:31.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:31.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:31.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:31.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.563][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.564][private$selectFields]
biodb.TRACE[2024-05-21 23:37:31.566][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:31.567][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:31.569][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.572][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.574][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.577][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.579][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.580][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.582][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.583][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.586][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.588][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.589][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.592][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.593][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:31.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.618][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-05-21 23:37:31.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:31.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:31.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:31.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:31.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:31.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:31.798][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:31.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.811][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.813][private$selectFields]
biodb.TRACE[2024-05-21 23:37:31.814][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:31.815][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:31.817][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.818][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.819][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.822][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.826][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.828][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.829][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.831][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.834][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.835][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:31.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.852][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-05-21 23:37:31.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:31.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:31.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:31.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:31.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:31.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:31.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:31.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.894][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.897][private$selectFields]
biodb.TRACE[2024-05-21 23:37:31.899][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:31.900][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:31.902][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.904][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.907][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.911][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.915][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.916][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.919][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:31.920][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.922][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.924][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.925][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:31.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:31.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.943][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-05-21 23:37:31.944][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-05-21 23:37:31.945][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-05-21 23:37:31.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:31.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:31.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:31.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:31.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:31.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:31.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:31.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:31.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:31.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:31.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:32.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:32.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:32.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:32.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:32.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:32.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:32.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:32.074][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.INFO [2024-05-21 23:37:32.079][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2024-05-21 23:37:32.082][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:32.084][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:32.089][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:32.446][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:32.790][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:32.795][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-05-21 23:37:32.804][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-05-21 23:37:32.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:32.818][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:32.820][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:32.824][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:33.172][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:33.520][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:33.523][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-05-21 23:37:33.528][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-05-21 23:37:33.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:33.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:33.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:33.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:33.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:33.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:33.551][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.TRACE[2024-05-21 23:37:33.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:33.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:33.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:33.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:33.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:33.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:33.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:33.612][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:33.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:33.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:33.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:33.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:33.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:33.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:33.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:33.649][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:33.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:33.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:33.702][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-05-21 23:37:33.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:33.728][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:33.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:33.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:33.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:33.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:33.761][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:33.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.773][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.775][private$selectFields]
biodb.TRACE[2024-05-21 23:37:33.776][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:33.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:33.779][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.784][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.789][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.792][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.797][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.799][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:33.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.827][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-05-21 23:37:33.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:33.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:33.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:33.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:33.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:33.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:33.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:33.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.913][private$selectFields]
biodb.TRACE[2024-05-21 23:37:33.914][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:33.915][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:33.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.922][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.927][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.928][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.937][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.943][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.944][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:33.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.961][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-05-21 23:37:33.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:33.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:33.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:33.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:33.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:33.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:33.986][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.TRACE[2024-05-21 23:37:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:33.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:33.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:33.998][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:33.999][private$selectFields]
biodb.TRACE[2024-05-21 23:37:34.001][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:34.002][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:34.003][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:34.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.008][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.013][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.014][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:34.015][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:34.017][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.018][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.020][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.022][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:34.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:34.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.038][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-05-21 23:37:34.040][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-05-21 23:37:34.041][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-05-21 23:37:34.067][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-05-21 23:37:34.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-05-21 23:37:34.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 23:37:34.090][biodb::testThat]
biodb.INFO [2024-05-21 23:37:34.093][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-05-21 23:37:34.095][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:34.097][biodb::testThat]
biodb.TRACE[2024-05-21 23:37:34.103][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 23:37:34.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 23:37:34.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:34.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:34.152][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:34.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:34.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:34.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:34.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:34.174][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[2024-05-21 23:37:34.178][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[2024-05-21 23:37:34.182][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:34.183][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:34.186][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:34.540][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:34.915][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:34.919][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-05-21 23:37:34.924][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-05-21 23:37:34.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:34.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:34.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:34.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:34.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:34.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:34.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:34.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:34.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:34.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:34.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:34.969][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:34.973][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:34.975][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:34.977][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:35.325][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:35.678][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:35.683][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-05-21 23:37:35.691][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-05-21 23:37:35.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:35.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:35.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:35.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:35.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:35.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:35.719][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:35.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:35.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:35.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:35.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:35.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:35.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:35.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:35.766][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[2024-05-21 23:37:35.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:35.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:35.793][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-05-21 23:37:35.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:35.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:35.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:35.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:35.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:35.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:35.816][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:35.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.836][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:35.838][private$selectFields]
biodb.TRACE[2024-05-21 23:37:35.840][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:35.842][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:35.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:35.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.852][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.854][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.861][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.863][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:35.865][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:35.867][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.872][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.874][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:35.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.900][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-05-21 23:37:35.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:35.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:35.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:35.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:35.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:35.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:35.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:35.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.935][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:35.936][private$selectFields]
biodb.TRACE[2024-05-21 23:37:35.937][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:35.939][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:35.940][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:35.941][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.945][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.950][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.951][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:35.953][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:35.954][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.955][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.957][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.959][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:35.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:35.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:35.976][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-05-21 23:37:35.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:35.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:35.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:35.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:35.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:35.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:35.993][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:35.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:35.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.009][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.010][private$selectFields]
biodb.TRACE[2024-05-21 23:37:36.011][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:36.012][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:36.013][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.019][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.021][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.024][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.026][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.031][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.033][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:36.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.051][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-05-21 23:37:36.052][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-05-21 23:37:36.054][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-05-21 23:37:36.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:36.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.137][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.140][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[2024-05-21 23:37:36.145][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:36.148][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-05-21 23:37:36.151][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:36.154][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-05-21 23:37:36.160][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[2024-05-21 23:37:36.166][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:36.168][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-05-21 23:37:36.171][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:36.175][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-05-21 23:37:36.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.198][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:36.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.231][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.TRACE[2024-05-21 23:37:36.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:36.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.285][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:36.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:36.303][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-05-21 23:37:36.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.326][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.TRACE[2024-05-21 23:37:36.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.339][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.340][private$selectFields]
biodb.TRACE[2024-05-21 23:37:36.342][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:36.343][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:36.344][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.345][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.350][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.355][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.356][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.357][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.359][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.360][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.363][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.364][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:36.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.387][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-05-21 23:37:36.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:36.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.415][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.416][private$selectFields]
biodb.TRACE[2024-05-21 23:37:36.417][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:36.418][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:36.420][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.421][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.422][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.425][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.426][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.427][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.430][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.431][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.433][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.438][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.439][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:36.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.457][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-05-21 23:37:36.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.472][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.485][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.486][private$selectFields]
biodb.TRACE[2024-05-21 23:37:36.487][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:36.488][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:36.490][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.492][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.495][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.496][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.498][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.500][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.501][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.503][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.504][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.506][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.507][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.508][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.509][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:36.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.527][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-05-21 23:37:36.528][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-05-21 23:37:36.529][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-05-21 23:37:36.549][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-05-21 23:37:36.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-05-21 23:37:36.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 23:37:36.606][biodb::testThat]
biodb.INFO [2024-05-21 23:37:36.608][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-05-21 23:37:36.609][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:36.610][biodb::testThat]
biodb.TRACE[2024-05-21 23:37:36.616][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-21 23:37:36.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-21 23:37:36.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:36.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.664][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.667][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[2024-05-21 23:37:36.671][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:36.673][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-05-21 23:37:36.674][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:36.677][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-05-21 23:37:36.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.701][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:36.719][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[2024-05-21 23:37:36.724][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:36.726][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-05-21 23:37:36.728][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:36.730][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-05-21 23:37:36.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.753][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:36.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.792][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:36.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:36.809][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-05-21 23:37:36.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.830][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.832][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[2024-05-21 23:37:36.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.845][private$selectFields]
biodb.TRACE[2024-05-21 23:37:36.846][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:36.847][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:36.848][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.861][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.866][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.867][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.869][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.870][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.871][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.873][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.875][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:36.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.892][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-05-21 23:37:36.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:36.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.919][private$selectFields]
biodb.TRACE[2024-05-21 23:37:36.920][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:36.921][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:36.923][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.924][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.928][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.930][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.933][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.935][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:36.936][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.938][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.940][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.941][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:36.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.958][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-05-21 23:37:36.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:36.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:36.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:36.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:36.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:36.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:36.984][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:36.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:36.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:36.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:36.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.001][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.002][private$selectFields]
biodb.TRACE[2024-05-21 23:37:37.003][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:37.004][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:37.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.011][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.018][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.021][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.023][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.025][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.029][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.031][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:37.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.052][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-05-21 23:37:37.054][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-05-21 23:37:37.055][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-05-21 23:37:37.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:37.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:37.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:37.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:37.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:37.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:37.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:37.160][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[2024-05-21 23:37:37.167][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[2024-05-21 23:37:37.172][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:37.174][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-05-21 23:37:37.176][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:37.178][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-05-21 23:37:37.183][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[2024-05-21 23:37:37.186][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:37.188][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-05-21 23:37:37.190][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:37.192][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-05-21 23:37:37.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:37.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:37.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:37.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:37.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:37.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:37.220][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.TRACE[2024-05-21 23:37:37.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:37.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:37.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:37.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:37.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:37.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:37.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:37.261][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.TRACE[2024-05-21 23:37:37.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:37.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:37.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:37.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:37.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:37.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:37.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:37.300][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:37.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:37.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:37.319][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-05-21 23:37:37.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:37.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:37.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:37.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:37.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:37.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:37.334][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.TRACE[2024-05-21 23:37:37.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.347][private$selectFields]
biodb.TRACE[2024-05-21 23:37:37.348][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:37.349][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:37.350][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.352][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.353][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.356][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.360][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.363][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.368][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.374][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.375][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:37.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.396][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-05-21 23:37:37.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:37.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:37.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:37.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:37.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:37.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:37.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:37.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.428][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.429][private$selectFields]
biodb.TRACE[2024-05-21 23:37:37.430][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:37.431][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:37.432][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.438][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.439][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.446][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.449][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.451][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.452][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.454][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.456][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.457][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:37.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.474][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-05-21 23:37:37.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:37.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:37.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:37.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:37.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:37.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:37.523][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:37.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.535][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.536][private$selectFields]
biodb.TRACE[2024-05-21 23:37:37.537][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-05-21 23:37:37.539][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-05-21 23:37:37.540][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.541][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.542][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.545][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.546][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.547][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.550][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.551][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.552][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-05-21 23:37:37.554][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.555][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.557][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.559][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-05-21 23:37:37.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:37.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:37.575][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-05-21 23:37:37.577][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-05-21 23:37:37.578][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-05-21 23:37:37.607][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-05-21 23:37:37.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-05-21 23:37:37.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:37.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-21 23:37:37.619][biodb::testThat]
biodb.INFO [2024-05-21 23:37:37.620][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-05-21 23:37:37.621][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:37.622][biodb::testThat]
biodb.DEBUG[2024-05-21 23:37:37.625][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-05-21 23:37:37.626][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:37.628][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-05-21 23:37:37.630][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:37.631][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:37.632][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:37.634][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:37.635][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:37.636][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:37.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:37.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:37.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:37.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:37.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:37.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:37.653][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:37.654][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-05-21 23:37:37.658][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:37.659][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:37.661][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-05-21 23:37:38.008][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-05-21 23:37:38.356][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:38.361][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-05-21 23:37:38.369][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-05-21 23:37:38.375][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-05-21 23:37:38.379][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:38.381][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:38.384][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:38.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:38.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:38.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:38.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:38.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:38.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:38.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:38.412][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.416][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.423][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:38.424][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:38.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.426][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.428][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:38.429][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:38.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.433][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.435][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:38.436][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:38.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.439][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.440][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:38.442][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:38.443][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.444][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.446][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:38.447][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:38.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.450][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.451][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:38.453][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:38.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.455][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.457][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:38.458][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:38.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.460][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.462][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:38.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:38.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.466][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.468][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:38.469][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:38.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.472][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.473][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:38.475][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:38.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.477][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:38.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:38.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:38.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:38.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:38.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:38.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:38.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:38.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:38.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:38.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:38.544][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-05-21 23:37:38.545][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-05-21 23:37:38.566][biodb::testThat]
biodb.INFO [2024-05-21 23:37:38.568][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-05-21 23:37:38.570][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:38.573][biodb::testThat]
biodb.DEBUG[2024-05-21 23:37:38.592][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-05-21 23:37:38.594][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-05-21 23:37:38.597][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-05-21 23:37:38.600][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-05-21 23:37:38.603][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-05-21 23:37:38.605][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:38.608][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:38.610][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:38.612][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:38.614][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:38.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:38.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:38.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:38.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:38.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:38.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:38.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:38.641][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-05-21 23:37:38.645][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:38.647][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:38.650][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-05-21 23:37:38.995][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-05-21 23:37:39.348][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:39.351][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-05-21 23:37:39.356][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-05-21 23:37:39.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:39.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:39.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:39.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:39.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:39.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:39.469][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[2024-05-21 23:37:39.471][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-05-21 23:37:39.474][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:39.476][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:39.477][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-05-21 23:37:39.821][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-05-21 23:37:40.189][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:40.192][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-05-21 23:37:40.198][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-05-21 23:37:40.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:40.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:40.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:40.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:40.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:40.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:40.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:40.223][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-05-21 23:37:40.229][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:40.246][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:40.249][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-05-21 23:37:40.598][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-05-21 23:37:40.961][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:40.965][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-05-21 23:37:40.970][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-05-21 23:37:40.974][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-05-21 23:37:40.980][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:40.983][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-05-21 23:37:40.986][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:40.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:40.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:40.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:41.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:41.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:41.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:41.009][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:41.012][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.013][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.018][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.025][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:41.026][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:41.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.029][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.030][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:41.032][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:41.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.034][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.036][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:41.037][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:41.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.040][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.042][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.044][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.046][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.048][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.049][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.052][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.053][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:41.055][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:41.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.058][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.060][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.062][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.064][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.066][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:41.067][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:41.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.069][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.071][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:41.072][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:41.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.075][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.076][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:41.078][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:41.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.080][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:41.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:41.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:41.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:41.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:41.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:41.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:41.143][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:41.146][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.150][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.157][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:41.158][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:41.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.161][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.163][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:41.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:41.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.169][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:41.170][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:41.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.172][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.174][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:41.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.179][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:41.181][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:41.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.183][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:41.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:41.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.191][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.192][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.194][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.201][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.203][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.205][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.215][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:41.217][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:41.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.220][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.222][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:41.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:41.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.230][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.232][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.235][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.245][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:41.246][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:41.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.248][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:41.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:41.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.256][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:41.257][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:41.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.260][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.262][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:41.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:41.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.267][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:41.268][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:41.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.272][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.274][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:41.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:41.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:41.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:41.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:41.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:41.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:41.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:41.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:41.346][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.TRACE[2024-05-21 23:37:41.349][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.351][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.353][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.360][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:41.361][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:41.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.364][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.366][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:41.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:41.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.371][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:41.373][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:41.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.376][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:41.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:41.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.387][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:41.388][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:41.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.390][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:41.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:41.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.398][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.400][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.402][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:41.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.414][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.416][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.420][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.422][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:41.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.428][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:41.429][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:41.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.432][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.433][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:41.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:41.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.439][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.440][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.444][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:41.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.451][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:41.453][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:41.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.456][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:41.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:41.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.466][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:41.467][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:41.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.470][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.472][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:41.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:41.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.478][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:41.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:41.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.483][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:41.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:41.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:41.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:41.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:41.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:41.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:41.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:41.583][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-05-21 23:37:41.585][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-05-21 23:37:41.586][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-05-21 23:37:41.619][biodb::testThat]
biodb.INFO [2024-05-21 23:37:41.620][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-05-21 23:37:41.622][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:41.623][biodb::testThat]
biodb.INFO [2024-05-21 23:37:41.669][biodb::testThat]
biodb.INFO [2024-05-21 23:37:41.672][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-05-21 23:37:41.674][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:41.676][biodb::testThat]
biodb.INFO [2024-05-21 23:37:41.694][biodb::testThat]
biodb.INFO [2024-05-21 23:37:41.695][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-05-21 23:37:41.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:41.698][biodb::testThat]
biodb.DEBUG[2024-05-21 23:37:41.702][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[2024-05-21 23:37:41.708][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:41.710][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:41.714][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:42.127][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:42.628][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:42.631][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-05-21 23:37:42.637][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-05-21 23:37:42.664][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:42.666][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:42.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:42.671][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:42.673][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:42.675][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:42.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:42.679][ef$get] fields variable is a list.
biodb.INFO [2024-05-21 23:37:42.683][biodb::testThat]
biodb.INFO [2024-05-21 23:37:42.685][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-05-21 23:37:42.687][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:42.689][biodb::testThat]
biodb.ERROR[2024-05-21 23:37:42.717][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-05-21 23:37:42.741][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-05-21 23:37:42.766][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-21 23:37:42.768][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-05-21 23:37:42.769][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-05-21 23:37:42.770][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-21 23:37:42.772][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:42.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:42.774][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:42.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:42.777][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-21 23:37:42.790][biodb::testContext]
biodb.INFO [2024-05-21 23:37:42.792][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 23:37:42.793][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-05-21 23:37:42.794][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 23:37:42.796][biodb::testContext]
biodb.INFO [2024-05-21 23:37:42.799][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-21 23:37:42.802][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.19-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-05-21 23:37:42.808][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:42.810][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-21 23:37:42.811][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-21 23:37:42.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.815][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:42.816][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-21 23:37:42.818][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-21 23:37:42.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:42.824][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-21 23:37:42.825][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-21 23:37:42.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.829][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:42.830][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-21 23:37:42.831][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-21 23:37:42.833][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-21 23:37:42.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:42.838][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-21 23:37:42.839][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-21 23:37:42.840][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-21 23:37:42.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.844][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:42.845][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-21 23:37:42.846][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-21 23:37:42.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:42.852][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-21 23:37:42.853][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-21 23:37:42.855][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-21 23:37:42.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.858][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.DEBUG[2024-05-21 23:37:42.860][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-21 23:37:42.861][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-21 23:37:42.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:42.866][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-21 23:37:42.868][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-21 23:37:42.869][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-21 23:37:42.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.872][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:42.874][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-21 23:37:42.875][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-21 23:37:42.876][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-21 23:37:42.878][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-21 23:37:42.879][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-21 23:37:42.881][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-21 23:37:42.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:42.887][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-21 23:37:42.888][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-21 23:37:42.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.892][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:42.893][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-21 23:37:42.895][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-21 23:37:42.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:42.902][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-21 23:37:42.904][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-21 23:37:42.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.909][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:42.911][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-21 23:37:42.913][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-21 23:37:42.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:42.919][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-21 23:37:42.920][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-21 23:37:42.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.924][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:42.925][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-21 23:37:42.927][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-21 23:37:42.931][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-21 23:37:42.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:42.937][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-21 23:37:42.939][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-21 23:37:42.940][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-21 23:37:42.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:42.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:42.943][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:42.945][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-21 23:37:42.947][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:42.948][self$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[2024-05-21 23:37:42.950][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:42.951][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:42.952][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:42.953][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:42.955][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:42.956][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:42.957][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 23:37:42.959][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:42.960][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:42.961][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-21 23:37:42.963][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:42.964][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:42.966][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:42.967][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:42.967][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:42.967][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:42.967][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 23:37:42.967][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 23:37:42.969][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:42.970][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:42.971][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:42.972][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:42.973][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:42.975][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:42.976][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:42.977][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:42.986][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:42.988][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:42.989][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:42.990][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:42.992][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-21 23:37:42.994][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:42.995][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 23:37:42.996][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:42.998][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:42.999][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.000][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.002][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.003][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.004][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 23:37:43.005][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:43.007][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.008][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-21 23:37:43.010][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:43.011][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.013][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.015][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:43.015][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:43.015][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:43.015][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 23:37:43.015][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 23:37:43.017][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:43.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:43.020][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:43.022][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:43.024][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:43.026][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:43.027][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.029][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.031][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:43.033][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:43.034][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.036][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.038][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-21 23:37:43.041][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.043][self$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[2024-05-21 23:37:43.045][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.047][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:43.049][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.050][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.052][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.054][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.056][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 23:37:43.058][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:43.059][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.061][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-21 23:37:43.062][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:43.063][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.064][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.066][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.067][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:43.068][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:43.069][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:43.071][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:43.072][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:43.073][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:43.074][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.075][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.077][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:43.078][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:43.079][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.080][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.082][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-21 23:37:43.084][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.085][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 23:37:43.087][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.088][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:43.090][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.091][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.092][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.093][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.095][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 23:37:43.096][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:43.097][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.098][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-21 23:37:43.099][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:43.101][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.102][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.103][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.104][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:43.106][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:43.107][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:43.109][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:43.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:43.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:43.114][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.116][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.118][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:43.120][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:43.122][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.124][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:43.126][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:43.128][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.130][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.DEBUG[2024-05-21 23:37:43.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.139][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[2024-05-21 23:37:43.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.148][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.157][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.164][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.171][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.179][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.189][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.198][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.207][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.217][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.226][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.235][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.DEBUG[2024-05-21 23:37:43.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.245][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.254][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.263][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.DEBUG[2024-05-21 23:37:43.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.272][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.278][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.DEBUG[2024-05-21 23:37:43.279][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-21 23:37:43.281][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-21 23:37:43.283][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-21 23:37:43.285][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-21 23:37:43.287][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 23:37:43.289][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 23:37:43.291][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-21 23:37:43.293][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-21 23:37:43.296][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-21 23:37:43.299][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 23:37:43.301][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 23:37:43.304][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-21 23:37:43.306][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-21 23:37:43.309][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-21 23:37:43.312][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-21 23:37:43.314][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 23:37:43.317][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-21 23:37:43.320][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-21 23:37:43.322][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 23:37:43.325][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-21 23:37:43.328][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-21 23:37:43.330][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-21 23:37:43.333][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-21 23:37:43.336][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-21 23:37:43.338][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-21 23:37:43.341][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-21 23:37:43.343][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-21 23:37:43.346][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-21 23:37:43.349][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-21 23:37:43.351][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-21 23:37:43.354][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-21 23:37:43.357][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-21 23:37:43.359][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-21 23:37:43.362][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-21 23:37:43.365][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-21 23:37:43.367][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-21 23:37:43.370][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-21 23:37:43.372][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-21 23:37:43.375][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-21 23:37:43.378][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-21 23:37:43.381][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-21 23:37:43.383][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-21 23:37:43.386][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-21 23:37:43.388][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-21 23:37:43.390][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-21 23:37:43.392][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-21 23:37:43.394][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-21 23:37:43.397][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-21 23:37:43.400][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-21 23:37:43.402][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-21 23:37:43.405][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-21 23:37:43.408][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-21 23:37:43.410][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-21 23:37:43.413][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-21 23:37:43.416][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-21 23:37:43.418][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-21 23:37:43.421][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-21 23:37:43.424][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-21 23:37:43.426][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-21 23:37:43.429][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-21 23:37:43.432][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-21 23:37:43.434][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-21 23:37:43.437][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-21 23:37:43.440][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-21 23:37:43.442][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-21 23:37:43.445][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-21 23:37:43.448][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 23:37:43.450][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 23:37:43.452][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-21 23:37:43.455][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-21 23:37:43.458][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-21 23:37:43.460][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-21 23:37:43.463][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-21 23:37:43.466][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-21 23:37:43.469][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-21 23:37:43.471][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-21 23:37:43.474][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-21 23:37:43.477][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-21 23:37:43.480][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-21 23:37:43.483][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-21 23:37:43.486][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-21 23:37:43.489][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-21 23:37:43.492][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-21 23:37:43.495][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-21 23:37:43.499][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-21 23:37:43.501][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:43.503][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.507][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.509][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[2024-05-21 23:37:43.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.522][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[2024-05-21 23:37:43.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.536][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.DEBUG[2024-05-21 23:37:43.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.549][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.562][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[2024-05-21 23:37:43.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.575][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.594][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.604][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.614][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.625][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[2024-05-21 23:37:43.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.637][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.650][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.662][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[2024-05-21 23:37:43.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.675][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.687][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.697][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.708][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:43.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:43.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:43.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:43.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:43.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:43.717][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:43.720][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.19-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-05-21 23:37:43.722][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-05-21 23:37:43.725][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.727][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.729][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.730][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:43.731][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.733][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.734][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.735][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-05-21 23:37:43.737][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-21 23:37:43.738][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:43.739][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.741][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-05-21 23:37:43.743][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-05-21 23:37:43.745][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-05-21 23:37:43.747][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:43.749][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:43.749][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:43.749][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:43.751][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-21 23:37:43.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:43.755][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:43.756][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:43.758][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:43.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:43.762][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:43.764][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:43.764][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-05-21 23:37:43.766][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:43.768][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:43.770][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:43.772][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-05-21 23:37:43.772][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-05-21 23:37:43.773][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 23:37:43.776][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 23:37:43.778][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-05-21 23:37:43.781][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 23:37:43.784][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 23:37:43.787][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 23:37:43.793][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-05-21 23:37:43.796][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-05-21 23:37:43.798][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-05-21 23:37:43.802][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-05-21 23:37:43.804][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 23:37:43.807][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 23:37:43.810][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-05-21 23:37:43.812][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-05-21 23:37:43.815][biodb::testThat]
biodb.INFO [2024-05-21 23:37:43.817][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-05-21 23:37:43.819][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:43.821][biodb::testThat]
biodb.DEBUG[2024-05-21 23:37:43.829][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-05-21 23:37:43.837][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:43.840][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:43.843][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-05-21 23:37:44.195][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-05-21 23:37:44.752][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:44.757][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-05-21 23:37:44.764][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-05-21 23:37:44.772][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[2024-05-21 23:37:44.779][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:44.781][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:44.785][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:45.135][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:45.478][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:45.481][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-05-21 23:37:45.487][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-05-21 23:37:45.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:45.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:45.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:45.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:45.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:45.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:45.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:45.516][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:45.521][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:45.522][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:45.524][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:45.877][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:46.230][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:46.234][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-05-21 23:37:46.242][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-05-21 23:37:46.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:46.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:46.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:46.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:46.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:46.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:46.270][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[2024-05-21 23:37:46.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:46.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:46.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:46.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:46.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:46.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:46.570][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:46.577][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[2024-05-21 23:37:46.581][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:46.583][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-05-21 23:37:46.585][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:46.587][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-05-21 23:37:46.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:46.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:46.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:46.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:46.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:46.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:46.627][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:46.631][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[2024-05-21 23:37:46.637][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:46.640][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-05-21 23:37:46.643][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:46.647][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-05-21 23:37:46.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:46.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:46.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:46.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:46.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:46.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:46.674][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:46.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:46.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:46.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:46.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:46.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:46.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:46.689][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:46.694][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[2024-05-21 23:37:46.698][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:46.700][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-05-21 23:37:46.702][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:46.704][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-05-21 23:37:46.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:46.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:46.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:46.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:46.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:46.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:46.735][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:46.738][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[2024-05-21 23:37:46.744][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:46.746][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-05-21 23:37:46.749][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:46.751][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-05-21 23:37:46.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:46.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:46.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:46.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:46.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:46.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:46.779][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:46.781][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[2024-05-21 23:37:46.785][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:46.786][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:46.789][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:47.141][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:47.484][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:47.487][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-05-21 23:37:47.493][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-05-21 23:37:47.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:47.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:47.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:47.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:47.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:47.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:47.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-21 23:37:47.544][biodb::testThat]
biodb.INFO [2024-05-21 23:37:47.545][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-05-21 23:37:47.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:47.547][biodb::testThat]
biodb.DEBUG[2024-05-21 23:37:47.551][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:47.555][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:47.557][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:47.560][private$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[2024-05-21 23:37:47.902][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[2024-05-21 23:37:48.245][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:48.248][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-05-21 23:37:48.255][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-05-21 23:37:48.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:48.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:48.265][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:48.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:48.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:48.286][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:48.287][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[2024-05-21 23:37:48.292][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[2024-05-21 23:37:48.296][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:48.298][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:48.302][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-05-21 23:37:48.651][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-05-21 23:37:49.000][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:49.005][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-05-21 23:37:49.010][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-05-21 23:37:49.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:49.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-21 23:37:49.047][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-21 23:37:49.049][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-05-21 23:37:49.051][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-05-21 23:37:49.052][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-21 23:37:49.053][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.056][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.058][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-21 23:37:49.064][biodb::testContext]
biodb.INFO [2024-05-21 23:37:49.066][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 23:37:49.067][biodb::testContext] Test context - Test web services
biodb.INFO [2024-05-21 23:37:49.068][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 23:37:49.069][biodb::testContext]
biodb.INFO [2024-05-21 23:37:49.072][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-21 23:37:49.075][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.19-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-05-21 23:37:49.081][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:49.082][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-21 23:37:49.084][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-21 23:37:49.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.087][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.089][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-21 23:37:49.090][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-21 23:37:49.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:49.095][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-21 23:37:49.096][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-21 23:37:49.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.100][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.101][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-21 23:37:49.102][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-21 23:37:49.104][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-21 23:37:49.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:49.108][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-21 23:37:49.110][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-21 23:37:49.111][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-21 23:37:49.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.117][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.DEBUG[2024-05-21 23:37:49.118][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-21 23:37:49.119][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-21 23:37:49.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:49.124][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-21 23:37:49.125][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-21 23:37:49.127][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-21 23:37:49.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.130][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.DEBUG[2024-05-21 23:37:49.132][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-21 23:37:49.133][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-21 23:37:49.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:49.138][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-21 23:37:49.139][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-21 23:37:49.140][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-21 23:37:49.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.144][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.145][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-21 23:37:49.146][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-21 23:37:49.148][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-21 23:37:49.149][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-21 23:37:49.150][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-21 23:37:49.151][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-21 23:37:49.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:49.156][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-21 23:37:49.158][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-21 23:37:49.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.161][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.162][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-21 23:37:49.164][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-21 23:37:49.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:49.169][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-21 23:37:49.170][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-21 23:37:49.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.175][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.177][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-21 23:37:49.179][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-21 23:37:49.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:49.184][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-21 23:37:49.185][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-21 23:37:49.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.191][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.193][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-21 23:37:49.194][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-21 23:37:49.199][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-21 23:37:49.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:49.205][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-21 23:37:49.207][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-21 23:37:49.210][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-21 23:37:49.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.215][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.217][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-21 23:37:49.219][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.221][self$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[2024-05-21 23:37:49.222][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.223][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:49.225][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.226][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.227][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.229][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.230][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 23:37:49.231][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:49.232][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.234][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-21 23:37:49.235][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:49.236][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.237][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.239][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:49.239][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:49.239][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:49.239][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 23:37:49.239][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 23:37:49.240][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:49.241][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.242][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.244][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:49.245][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.247][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.249][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.250][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:49.251][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:49.252][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.253][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.255][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-21 23:37:49.257][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.258][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 23:37:49.260][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.261][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:49.262][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.263][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.265][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.266][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.267][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 23:37:49.269][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:49.270][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.271][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-21 23:37:49.272][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:49.274][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.275][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.276][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:49.276][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:49.276][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:49.276][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 23:37:49.276][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 23:37:49.277][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:49.279][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.280][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.281][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:49.282][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.283][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.285][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.286][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.287][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:49.288][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:49.289][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.291][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.292][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-21 23:37:49.294][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.295][self$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[2024-05-21 23:37:49.297][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.298][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:49.299][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.300][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.302][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.303][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.304][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 23:37:49.305][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:49.307][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.308][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-21 23:37:49.309][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:49.311][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.312][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.313][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.314][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:49.315][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.316][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.318][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:49.319][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.321][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.322][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.324][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:49.325][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:49.326][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.327][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.329][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-21 23:37:49.331][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.332][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 23:37:49.333][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.335][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:49.336][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.337][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.339][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.341][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.342][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 23:37:49.343][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:49.345][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.346][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-21 23:37:49.347][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:49.348][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.350][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.351][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.353][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:49.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.355][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.356][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:49.358][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.359][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.360][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.362][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.363][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:49.364][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:49.365][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.367][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:49.368][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:49.370][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.371][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.377][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[2024-05-21 23:37:49.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.385][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[2024-05-21 23:37:49.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.391][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[2024-05-21 23:37:49.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.397][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[2024-05-21 23:37:49.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.403][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[2024-05-21 23:37:49.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.417][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[2024-05-21 23:37:49.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.423][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.DEBUG[2024-05-21 23:37:49.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.429][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.435][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.443][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[2024-05-21 23:37:49.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.449][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[2024-05-21 23:37:49.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.455][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.460][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.DEBUG[2024-05-21 23:37:49.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.466][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[2024-05-21 23:37:49.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.471][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[2024-05-21 23:37:49.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.477][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[2024-05-21 23:37:49.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.483][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.484][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-21 23:37:49.485][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-21 23:37:49.487][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-21 23:37:49.489][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-21 23:37:49.490][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 23:37:49.492][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 23:37:49.493][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-21 23:37:49.495][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-21 23:37:49.499][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-21 23:37:49.501][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 23:37:49.503][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 23:37:49.504][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-21 23:37:49.506][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-21 23:37:49.508][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-21 23:37:49.509][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-21 23:37:49.511][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 23:37:49.512][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-21 23:37:49.514][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-21 23:37:49.515][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 23:37:49.517][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-21 23:37:49.519][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-21 23:37:49.520][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-21 23:37:49.522][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-21 23:37:49.524][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-21 23:37:49.525][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-21 23:37:49.527][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-21 23:37:49.529][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-21 23:37:49.531][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-21 23:37:49.532][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-21 23:37:49.534][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-21 23:37:49.536][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-21 23:37:49.537][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-21 23:37:49.539][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-21 23:37:49.540][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-21 23:37:49.542][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-21 23:37:49.544][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-21 23:37:49.546][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-21 23:37:49.547][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-21 23:37:49.549][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-21 23:37:49.550][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-21 23:37:49.552][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-21 23:37:49.554][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-21 23:37:49.555][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-21 23:37:49.557][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-21 23:37:49.559][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-21 23:37:49.560][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-21 23:37:49.562][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-21 23:37:49.564][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-21 23:37:49.565][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-21 23:37:49.567][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-21 23:37:49.568][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-21 23:37:49.570][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-21 23:37:49.572][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-21 23:37:49.573][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-21 23:37:49.575][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-21 23:37:49.577][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-21 23:37:49.578][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-21 23:37:49.580][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-21 23:37:49.581][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-21 23:37:49.583][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-21 23:37:49.585][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-21 23:37:49.586][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-21 23:37:49.588][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-21 23:37:49.590][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-21 23:37:49.591][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-21 23:37:49.593][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-21 23:37:49.595][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 23:37:49.596][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 23:37:49.598][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-21 23:37:49.599][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-21 23:37:49.601][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-21 23:37:49.603][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-21 23:37:49.604][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-21 23:37:49.606][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-21 23:37:49.608][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-21 23:37:49.609][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-21 23:37:49.611][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-21 23:37:49.612][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-21 23:37:49.614][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-21 23:37:49.616][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-21 23:37:49.617][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-21 23:37:49.619][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-21 23:37:49.621][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-21 23:37:49.622][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-21 23:37:49.625][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-21 23:37:49.626][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:49.627][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.629][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.631][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.639][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.DEBUG[2024-05-21 23:37:49.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.647][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.656][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.665][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.674][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.683][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.693][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.DEBUG[2024-05-21 23:37:49.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.705][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[2024-05-21 23:37:49.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.718][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.726][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.739][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.748][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.759][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.769][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.777][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.785][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.DEBUG[2024-05-21 23:37:49.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:49.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:49.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:49.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:49.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:49.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:49.793][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:49.796][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.19-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-05-21 23:37:49.798][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-05-21 23:37:49.800][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.802][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.803][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.804][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:49.806][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.808][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.809][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.810][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-05-21 23:37:49.811][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-21 23:37:49.813][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:49.814][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.816][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-05-21 23:37:49.817][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-05-21 23:37:49.818][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-05-21 23:37:49.820][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:49.821][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:49.821][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:49.821][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:49.823][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-21 23:37:49.824][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.825][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.826][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:49.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:49.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:49.831][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:49.832][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:49.832][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-05-21 23:37:49.834][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:49.835][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:49.836][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:49.837][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-05-21 23:37:49.837][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-05-21 23:37:49.839][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 23:37:49.841][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 23:37:49.843][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-05-21 23:37:49.845][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 23:37:49.847][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 23:37:49.849][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 23:37:49.853][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-05-21 23:37:49.862][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-05-21 23:37:49.863][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-05-21 23:37:49.865][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-05-21 23:37:49.867][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 23:37:49.868][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 23:37:49.870][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-05-21 23:37:49.872][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-05-21 23:37:49.874][biodb::testThat]
biodb.INFO [2024-05-21 23:37:49.875][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-05-21 23:37:49.877][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:49.878][biodb::testThat]
biodb.DEBUG[2024-05-21 23:37:49.882][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-05-21 23:37:49.887][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:49.889][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-05-21 23:37:49.891][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:49.894][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-05-21 23:37:49.899][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-05-21 23:37:49.904][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:49.905][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:49.909][private$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[2024-05-21 23:37:50.264][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[2024-05-21 23:37:50.617][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:50.622][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-05-21 23:37:50.628][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-05-21 23:37:50.649][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-21 23:37:50.651][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-05-21 23:37:50.653][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-05-21 23:37:50.654][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-21 23:37:50.656][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:50.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:50.658][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:50.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:50.661][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.663][FUN] Functions in observer BiodbConfig: [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 [2024-05-21 23:37:50.669][biodb::testContext]
biodb.INFO [2024-05-21 23:37:50.671][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 23:37:50.672][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-05-21 23:37:50.673][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-21 23:37:50.674][biodb::testContext]
biodb.INFO [2024-05-21 23:37:50.677][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-21 23:37:50.680][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.19-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-05-21 23:37:50.687][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:50.689][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-21 23:37:50.690][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-21 23:37:50.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.695][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-21 23:37:50.696][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-21 23:37:50.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.700][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:50.702][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-21 23:37:50.703][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-21 23:37:50.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.708][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-21 23:37:50.709][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-21 23:37:50.711][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-21 23:37:50.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.717][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:50.719][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-21 23:37:50.720][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-21 23:37:50.721][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-21 23:37:50.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.726][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-21 23:37:50.727][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-21 23:37:50.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.732][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:50.733][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-21 23:37:50.735][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-21 23:37:50.736][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-21 23:37:50.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.742][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-21 23:37:50.744][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-21 23:37:50.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.747][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[2024-05-21 23:37:50.749][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-21 23:37:50.751][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-21 23:37:50.752][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-21 23:37:50.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.758][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-21 23:37:50.759][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-21 23:37:50.760][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-21 23:37:50.762][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-21 23:37:50.763][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-21 23:37:50.764][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-21 23:37:50.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.768][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:50.770][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-21 23:37:50.773][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-21 23:37:50.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.779][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-21 23:37:50.780][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-21 23:37:50.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.785][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.DEBUG[2024-05-21 23:37:50.786][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-21 23:37:50.788][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-21 23:37:50.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.793][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-21 23:37:50.794][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-21 23:37:50.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.798][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:50.799][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-21 23:37:50.801][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-21 23:37:50.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.806][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-21 23:37:50.807][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-21 23:37:50.812][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-21 23:37:50.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.816][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:50.818][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-21 23:37:50.820][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-21 23:37:50.822][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-21 23:37:50.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:50.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:50.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-21 23:37:50.827][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-21 23:37:50.829][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.830][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-21 23:37:50.832][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.833][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:50.834][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.836][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.837][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.838][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.841][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 23:37:50.843][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:50.845][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.847][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-21 23:37:50.849][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:50.851][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.853][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.855][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:50.855][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:50.855][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:50.855][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 23:37:50.855][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 23:37:50.856][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:50.858][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:50.859][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:50.860][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:50.861][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:50.862][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:50.864][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.865][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.866][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:50.867][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:50.868][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.870][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.871][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-21 23:37:50.874][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.876][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 23:37:50.878][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.880][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:50.883][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.885][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.887][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.889][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.891][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 23:37:50.892][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:50.894][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.895][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-21 23:37:50.896][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:50.898][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.900][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.901][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:50.901][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:50.901][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:50.901][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-21 23:37:50.901][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-21 23:37:50.903][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:50.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:50.906][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:50.907][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:50.908][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:50.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:50.911][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.912][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.913][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:50.914][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:50.916][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.917][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.919][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-21 23:37:50.921][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.923][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-21 23:37:50.924][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.926][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:50.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.929][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.932][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.934][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.937][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-21 23:37:50.940][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:50.942][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.944][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-21 23:37:50.947][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:50.948][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.950][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.953][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.955][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:50.956][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:50.957][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:50.959][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:50.961][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:50.963][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:50.965][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.968][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.970][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:50.972][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:50.974][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.975][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:50.978][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-21 23:37:50.980][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.982][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-21 23:37:50.983][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.985][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:50.988][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:50.990][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.993][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:50.994][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-21 23:37:50.995][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-21 23:37:50.997][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:50.999][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:51.001][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-21 23:37:51.003][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:51.005][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:51.007][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:51.010][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:51.012][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-21 23:37:51.014][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:51.016][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:51.018][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:51.020][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:51.022][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:51.024][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:51.025][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:51.026][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:51.027][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:51.029][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:51.030][self$setPropertyValue]
biodb.DEBUG[2024-05-21 23:37:51.032][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:51.033][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.034][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.040][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.046][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.052][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.057][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[2024-05-21 23:37:51.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.064][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.073][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.DEBUG[2024-05-21 23:37:51.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.082][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[2024-05-21 23:37:51.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.091][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[2024-05-21 23:37:51.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.100][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.109][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.118][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.139][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[2024-05-21 23:37:51.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.149][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.157][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.166][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.175][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.184][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[2024-05-21 23:37:51.186][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-21 23:37:51.189][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-21 23:37:51.191][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-21 23:37:51.194][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-21 23:37:51.197][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 23:37:51.199][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-21 23:37:51.202][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-21 23:37:51.204][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-21 23:37:51.206][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-21 23:37:51.207][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-21 23:37:51.209][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 23:37:51.211][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-21 23:37:51.213][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-21 23:37:51.215][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-21 23:37:51.217][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-21 23:37:51.219][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-21 23:37:51.222][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-21 23:37:51.225][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-21 23:37:51.227][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 23:37:51.229][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-21 23:37:51.231][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-21 23:37:51.232][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-21 23:37:51.234][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-21 23:37:51.236][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-21 23:37:51.238][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-21 23:37:51.239][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-21 23:37:51.241][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-21 23:37:51.243][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-21 23:37:51.244][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-21 23:37:51.246][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-21 23:37:51.248][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-21 23:37:51.249][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-21 23:37:51.251][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-21 23:37:51.253][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-21 23:37:51.254][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-21 23:37:51.256][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-21 23:37:51.259][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-21 23:37:51.261][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-21 23:37:51.264][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-21 23:37:51.267][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-21 23:37:51.270][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-21 23:37:51.272][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-21 23:37:51.275][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-21 23:37:51.277][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-21 23:37:51.279][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-21 23:37:51.281][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-21 23:37:51.283][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-21 23:37:51.284][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-21 23:37:51.286][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-21 23:37:51.288][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-21 23:37:51.290][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-21 23:37:51.291][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-21 23:37:51.293][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-21 23:37:51.295][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-21 23:37:51.296][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-21 23:37:51.298][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-21 23:37:51.300][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-21 23:37:51.303][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-21 23:37:51.305][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-21 23:37:51.308][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-21 23:37:51.311][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-21 23:37:51.314][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-21 23:37:51.317][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-21 23:37:51.319][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-21 23:37:51.322][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-21 23:37:51.325][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-21 23:37:51.328][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 23:37:51.330][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 23:37:51.333][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-21 23:37:51.336][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-21 23:37:51.339][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-21 23:37:51.342][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-21 23:37:51.344][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-21 23:37:51.347][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-21 23:37:51.350][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-21 23:37:51.353][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-21 23:37:51.355][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-21 23:37:51.358][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-21 23:37:51.361][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-21 23:37:51.364][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-21 23:37:51.366][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-21 23:37:51.369][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-21 23:37:51.372][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-21 23:37:51.375][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-21 23:37:51.379][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-21 23:37:51.381][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-21 23:37:51.383][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.387][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.389][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.402][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[2024-05-21 23:37:51.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.414][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.422][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.433][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.447][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.458][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.471][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[2024-05-21 23:37:51.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.484][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.497][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.510][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.523][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.537][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.550][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.563][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.578][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.593][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-21 23:37:51.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.605][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.610][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.19-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-05-21 23:37:51.612][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-05-21 23:37:51.616][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:51.618][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-21 23:37:51.620][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:51.622][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-21 23:37:51.625][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:51.627][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-21 23:37:51.629][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:51.632][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-05-21 23:37:51.635][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-21 23:37:51.638][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-21 23:37:51.640][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:51.642][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-05-21 23:37:51.644][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-05-21 23:37:51.647][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-05-21 23:37:51.649][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-21 23:37:51.651][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-21 23:37:51.651][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-21 23:37:51.651][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-21 23:37:51.653][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-21 23:37:51.655][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:51.657][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:51.659][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-21 23:37:51.661][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-21 23:37:51.663][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-21 23:37:51.665][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-21 23:37:51.667][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:51.667][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-05-21 23:37:51.669][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-21 23:37:51.671][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-21 23:37:51.673][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-21 23:37:51.675][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-05-21 23:37:51.675][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-05-21 23:37:51.683][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-21 23:37:51.687][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-21 23:37:51.690][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-05-21 23:37:51.693][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-21 23:37:51.696][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-21 23:37:51.699][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-21 23:37:51.705][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-05-21 23:37:51.708][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-05-21 23:37:51.710][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-05-21 23:37:51.713][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-05-21 23:37:51.716][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 23:37:51.718][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-21 23:37:51.721][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-05-21 23:37:51.723][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-05-21 23:37:51.727][biodb::testThat]
biodb.INFO [2024-05-21 23:37:51.729][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-05-21 23:37:51.731][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-21 23:37:51.737][biodb::testThat]
biodb.DEBUG[2024-05-21 23:37:51.743][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-05-21 23:37:51.754][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:51.757][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-05-21 23:37:51.760][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:51.764][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-05-21 23:37:51.771][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[2024-05-21 23:37:51.777][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-05-21 23:37:51.792][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-05-21 23:37:51.795][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-21 23:37:51.798][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-05-21 23:37:51.804][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-05-21 23:37:51.806][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-05-21 23:37:51.808][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-05-21 23:37:51.810][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-21 23:37:51.813][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-21 23:37:51.815][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-05-21 23:37:51.816][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-05-21 23:37:51.817][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-05-21 23:37:51.819][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-05-21 23:37:51.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:51.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:51.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:51.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:51.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:51.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:51.855][FUN] Functions in observer BiodbConfig: [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[2024-05-21 23:37:51.857][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-05-21 23:37:51.861][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-05-21 23:37:51.863][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-05-21 23:37:51.864][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-05-21 23:37:52.219][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-05-21 23:37:52.977][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-05-21 23:37:52.980][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-05-21 23:37:52.987][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-05-21 23:37:52.992][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-05-21 23:37:52.996][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-05-21 23:37:52.999][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-05-21 23:37:53.001][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-05-21 23:37:53.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-21 23:37:53.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:53.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:53.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:53.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:53.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:53.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-21 23:37:53.026][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.028][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.032][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.043][ef$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:53.044][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:53.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.046][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.048][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-05-21 23:37:53.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-05-21 23:37:53.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.057][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:53.059][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:53.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.063][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.066][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-21 23:37:53.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-21 23:37:53.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.074][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-21 23:37:53.076][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-21 23:37:53.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.080][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.083][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-21 23:37:53.085][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-21 23:37:53.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.087][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:53.090][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:53.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.093][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.095][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:53.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-21 23:37:53.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.100][ef$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:53.101][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:53.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.104][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.106][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-05-21 23:37:53.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-05-21 23:37:53.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.111][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:53.113][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:53.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.115][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:53.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-21 23:37:53.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.122][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:53.124][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:53.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.127][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-21 23:37:53.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-21 23:37:53.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.139][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:53.141][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:53.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.144][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.147][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-05-21 23:37:53.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-05-21 23:37:53.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.153][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:53.155][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:53.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.157][ef$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.159][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-21 23:37:53.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-21 23:37:53.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:53.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:53.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:53.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:53.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-21 23:37:53.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-21 23:37:53.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-21 23:37:53.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-21 23:37:53.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-21 23:37:53.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-21 23:37:53.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-21 23:37:53.226][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-05-21 23:37:53.236][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-21 23:37:53.238][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-05-21 23:37:53.240][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-05-21 23:37:53.242][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-21 23:37:53.244][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-21 23:37:53.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-21 23:37:53.248][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-21 23:37:53.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-21 23:37:53.252][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-21 23:37:53.254][FUN] Functions in observer 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 386 ]
> 
> proc.time()
   user  system elapsed 
  26.67    2.32   66.53

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn 4.00 1.8362.47
ChebiEntry0.810.010.84