Back to Multiple platform build/check report for BioC 3.21:   simplified   long
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This page was generated on 2025-02-06 11:41 -0500 (Thu, 06 Feb 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4719
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" 4480
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" 4491
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" 4444
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 203/2295HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.13.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-02-05 13:48 -0500 (Wed, 05 Feb 2025)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: devel
git_last_commit: d2b9830
git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    ERROR    OK  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

CHECK results for biodbHmdb on lconway

To the developers/maintainers of the biodbHmdb package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.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: biodbHmdb
Version: 1.13.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.13.0.tar.gz
StartedAt: 2025-02-05 19:10:39 -0500 (Wed, 05 Feb 2025)
EndedAt: 2025-02-05 19:11:39 -0500 (Wed, 05 Feb 2025)
EllapsedTime: 59.9 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: biodbHmdb.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck’
* using R Under development (unstable) (2025-01-22 r87618)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.13.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* 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 ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* 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: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** this is package ‘biodbHmdb’ version ‘1.13.0’
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c EntryMaker.cpp -o EntryMaker.o
EntryMaker.cpp:6:5: warning: field 'accession_tag' will be initialized after field 'closed' [-Wreorder-ctor]
    accession_tag("<accession>", "</accession>"),
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    closed(true)
1 warning generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c TagDetector.cpp -o TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -DR_NO_REMAP -c test-runner.cpp -o test-runner.o
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-02-05 19:11:20.287][biodb::testContext]
biodb.INFO [2025-02-05 19:11:20.366][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 19:11:20.368][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-02-05 19:11:20.369][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 19:11:20.371][biodb::testContext]
biodb.INFO [2025-02-05 19:11:20.373][biodb::testThat]
biodb.INFO [2025-02-05 19:11:20.374][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-02-05 19:11:20.376][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:20.377][biodb::testThat]
biodb.INFO [2025-02-05 19:11:20.551][biodb::testContext]
biodb.INFO [2025-02-05 19:11:20.553][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 19:11:20.555][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-02-05 19:11:20.556][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 19:11:20.558][biodb::testContext]
biodb.INFO [2025-02-05 19:11:20.570][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 19:11:20.572][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 19:11:20.583][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:20.584][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 19:11:20.586][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 19:11:20.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.591][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 19:11:20.625][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 19:11:20.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.630][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 19:11:20.631][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 19:11:20.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.636][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 19:11:20.637][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 19:11:20.638][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 19:11:20.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.643][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 19:11:20.644][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 19:11:20.645][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 19:11:20.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.649][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 19:11:20.650][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 19:11:20.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.655][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 19:11:20.656][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 19:11:20.658][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 19:11:20.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.662][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 19:11:20.664][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 19:11:20.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.669][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 19:11:20.670][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 19:11:20.671][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 19:11:20.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.675][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 19:11:20.676][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 19:11:20.678][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 19:11:20.679][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 19:11:20.680][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 19:11:20.682][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 19:11:20.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.686][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 19:11:20.688][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 19:11:20.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.692][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 19:11:20.693][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 19:11:20.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.698][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 19:11:20.699][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 19:11:20.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.704][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 19:11:20.706][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 19:11:20.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.710][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 19:11:20.712][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 19:11:20.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.716][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 19:11:20.717][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 19:11:20.739][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 19:11:20.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.744][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 19:11:20.745][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 19:11:20.747][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 19:11:20.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.755][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 19:11:20.799][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.821][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-05 19:11:20.824][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.826][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:20.827][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.830][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.831][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.832][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.834][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 19:11:20.835][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:20.836][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.838][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 19:11:20.839][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:20.840][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.842][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.843][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:20.843][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 19:11:20.843][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 19:11:20.843][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 19:11:20.843][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 19:11:20.844][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:20.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:20.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:20.848][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:20.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:20.850][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:20.852][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.853][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.854][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:20.864][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:20.865][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.867][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.868][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 19:11:20.871][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.872][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 19:11:20.874][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.875][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:20.877][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.878][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.879][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.880][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.881][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 19:11:20.883][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:20.884][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.885][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 19:11:20.886][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:20.888][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.889][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.890][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:20.890][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 19:11:20.890][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 19:11:20.890][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 19:11:20.890][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 19:11:20.892][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:20.893][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:20.894][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:20.895][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:20.896][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:20.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:20.899][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.900][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.901][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:20.902][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:20.903][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.904][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.906][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 19:11:20.908][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.910][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-05 19:11:20.911][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.912][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:20.914][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.915][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.916][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.917][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.919][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 19:11:20.920][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:20.921][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.922][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 19:11:20.924][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:20.925][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.926][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.927][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.929][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:20.930][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:20.931][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:20.933][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:20.934][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:20.935][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:20.936][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.938][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.939][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:20.940][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:20.942][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.943][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.944][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 19:11:20.947][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.948][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 19:11:20.950][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.951][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:20.952][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.954][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.955][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.956][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.958][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 19:11:20.959][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:20.960][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.961][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 19:11:20.962][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:20.964][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.965][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:20.966][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.967][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:20.969][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:20.970][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:20.971][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:20.972][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:20.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:20.975][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:20.976][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.977][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:20.978][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:20.979][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:20.981][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:20.986][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:20.987][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.989][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[2025-02-05 19:11:20.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:20.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:20.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:20.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:20.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:20.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:20.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:20.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.091][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 19:11:21.105][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 19:11:21.107][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 19:11:21.109][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 19:11:21.111][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 19:11:21.113][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 19:11:21.115][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 19:11:21.117][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 19:11:21.119][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 19:11:21.121][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 19:11:21.123][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 19:11:21.125][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 19:11:21.126][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 19:11:21.128][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 19:11:21.130][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 19:11:21.132][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 19:11:21.134][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 19:11:21.136][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 19:11:21.138][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 19:11:21.139][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 19:11:21.141][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 19:11:21.142][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 19:11:21.143][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 19:11:21.145][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 19:11:21.147][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 19:11:21.148][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 19:11:21.149][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 19:11:21.151][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 19:11:21.153][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 19:11:21.154][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 19:11:21.156][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 19:11:21.158][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 19:11:21.160][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 19:11:21.162][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 19:11:21.163][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 19:11:21.165][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 19:11:21.167][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 19:11:21.169][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 19:11:21.171][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 19:11:21.173][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 19:11:21.175][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 19:11:21.176][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 19:11:21.178][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 19:11:21.180][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 19:11:21.182][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 19:11:21.184][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 19:11:21.185][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 19:11:21.187][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 19:11:21.188][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 19:11:21.190][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 19:11:21.192][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 19:11:21.194][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 19:11:21.195][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 19:11:21.196][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 19:11:21.198][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 19:11:21.200][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 19:11:21.202][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 19:11:21.203][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 19:11:21.205][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 19:11:21.206][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 19:11:21.208][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 19:11:21.210][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 19:11:21.212][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 19:11:21.213][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 19:11:21.215][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 19:11:21.216][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 19:11:21.218][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 19:11:21.220][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 19:11:21.221][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 19:11:21.223][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 19:11:21.224][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 19:11:21.226][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 19:11:21.227][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 19:11:21.229][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 19:11:21.231][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 19:11:21.233][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 19:11:21.235][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 19:11:21.236][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 19:11:21.238][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 19:11:21.239][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 19:11:21.241][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 19:11:21.243][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 19:11:21.244][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 19:11:21.252][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 19:11:21.254][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 19:11:21.258][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:21.260][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.262][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.263][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[2025-02-05 19:11:21.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.377][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[2025-02-05 19:11:21.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.385][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[2025-02-05 19:11:21.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.414][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[2025-02-05 19:11:21.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.422][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[2025-02-05 19:11:21.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:21.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:21.440][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-02-05 19:11:21.453][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:21.455][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:21.457][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 19:11:21.458][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:21.460][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:21.461][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:21.462][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-02-05 19:11:21.463][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:21.465][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:21.466][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 19:11:21.467][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:21.468][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:21.469][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-02-05 19:11:21.471][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-02-05 19:11:21.472][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-02-05 19:11:21.474][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:21.475][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:21.475][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-02-05 19:11:21.475][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-02-05 19:11:21.476][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 19:11:21.478][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:21.479][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:21.480][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:21.481][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:21.482][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:21.483][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:21.484][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-02-05 19:11:21.484][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-02-05 19:11:21.486][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:21.487][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:21.488][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:21.489][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:21.497][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-02-05 19:11:21.499][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 19:11:21.501][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 19:11:21.504][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 19:11:21.506][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 19:11:21.535][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:21.537][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-02-05 19:11:21.541][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:21.547][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:21.552][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:21.554][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:21.556][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-02-05 19:11:21.557][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-02-05 19:11:21.559][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-02-05 19:11:21.559][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-02-05 19:11:21.561][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:21.562][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:21.563][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-02-05 19:11:21.564][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-02-05 19:11:21.565][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:21.603][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:21.605][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:21.606][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:21.608][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:21.610][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:21.611][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-02-05 19:11:21.621][biodb::testThat]
biodb.INFO [2025-02-05 19:11:21.622][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-02-05 19:11:21.624][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:21.625][biodb::testThat]
biodb.TRACE[2025-02-05 19:11:21.630][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-02-05 19:11:21.633][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-02-05 19:11:21.637][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-02-05 19:11:21.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:21.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:21.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:21.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:21.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:21.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:21.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 19:11:21.672][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:21.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:21.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.676][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:21.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:21.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.698][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:21.699][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:21.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.702][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.736][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:21.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:21.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.741][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:21.742][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:21.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.744][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.746][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:21.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:21.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.751][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:21.752][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:21.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.754][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.756][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:21.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:21.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:21.762][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:21.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.765][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:21.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:21.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.772][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:21.773][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:21.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.776][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:21.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:21.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.783][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:21.785][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:21.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.787][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.789][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:21.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:21.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.794][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:21.795][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:21.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.807][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.809][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:21.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:21.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.814][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:21.816][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:21.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.818][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.820][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:21.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:21.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.825][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:21.827][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:21.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.829][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.831][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:21.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:21.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.836][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:21.837][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:21.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.839][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:21.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:21.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.846][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:21.848][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:21.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.850][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:21.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:21.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.857][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:21.859][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:21.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.861][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:21.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:21.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.868][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:21.870][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:21.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.872][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:21.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:21.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.878][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:21.880][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:21.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.883][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:21.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:21.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.890][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:21.891][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:21.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.894][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.895][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:21.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:21.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.901][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:21.902][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:21.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.905][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.906][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:21.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:21.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.912][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:21.913][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:21.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.916][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.918][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:21.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:21.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:21.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:21.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:21.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:21.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:21.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:21.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.984][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:21.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:21.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:21.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:21.996][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:21.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:21.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.001][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.007][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:22.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:22.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.012][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:22.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:22.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.017][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:22.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:22.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.058][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.063][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.068][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:22.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:22.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.073][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:22.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:22.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.078][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:22.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:22.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.083][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.089][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.094][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.099][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:22.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:22.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.104][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:22.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:22.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.109][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:22.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:22.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.115][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:22.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:22.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.119][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:22.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:22.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:22.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:22.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.129][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:22.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:22.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:22.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:22.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:22.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:22.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.158][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.167][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.209][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.214][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.217][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.222][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.227][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.233][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.238][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:22.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:22.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.244][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:22.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:22.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.249][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:22.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:22.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.254][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:22.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.273][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:22.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:22.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.303][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.331][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.336][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.346][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:22.388][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-02-05 19:11:22.392][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 19:11:22.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 19:11:22.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.397][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 19:11:22.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 19:11:22.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.402][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 19:11:22.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 19:11:22.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.408][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 19:11:22.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 19:11:22.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.447][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.492][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.498][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.505][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:22.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.537][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.538][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.540][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:22.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:22.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.559][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.565][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.570][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.582][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.584][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.587][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.588][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:22.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.621][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.622][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.625][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:22.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.641][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.645][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.649][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.654][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.655][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.657][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.658][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:22.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.691][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.693][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:22.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.712][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.718][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.724][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.728][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.729][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.731][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.732][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:22.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.748][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.753][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.762][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.763][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.766][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:22.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:22.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.788][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:22.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:22.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.793][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:22.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:22.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.798][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:22.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:22.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.803][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:22.805][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:22.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.806][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.808][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:22.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.822][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:22.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:22.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.827][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:22.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:22.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.832][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:22.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:22.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.837][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:22.839][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:22.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.841][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.843][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:22.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:22.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.859][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.864][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.868][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.873][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.874][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.877][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.878][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:22.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.908][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.909][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.911][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:22.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.927][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.938][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.943][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.945][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.947][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:22.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.971][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.976][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.981][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.986][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.987][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.990][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:22.991][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:22.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:22.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.007][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.018][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.023][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.025][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.027][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.028][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.042][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.049][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.054][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.061][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.063][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.064][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.097][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.098][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.101][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.131][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.132][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.134][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.158][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.163][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.167][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.172][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.173][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.175][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.176][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.190][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:23.191][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:23.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.193][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.200][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.202][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.204][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.210][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.211][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.213][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.225][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.232][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.234][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.237][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.244][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.246][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.249][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.257][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.258][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.260][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.267][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.269][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.271][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.278][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:23.279][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:23.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.281][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.287][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:23.289][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:23.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.291][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.298][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.299][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.302][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.308][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.312][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.321][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.322][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.325][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.332][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.334][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.337][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.344][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:23.346][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:23.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.349][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.377][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.379][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.381][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.395][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.396][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.399][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.405][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.407][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.409][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 19:11:23.420][biodb::testThat]
biodb.INFO [2025-02-05 19:11:23.421][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-02-05 19:11:23.423][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:23.424][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:23.440][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-02-05 19:11:23.448][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-02-05 19:11:23.453][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:23.455][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-02-05 19:11:23.458][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-02-05 19:11:23.459][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 19:11:23.462][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-02-05 19:11:23.464][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 19:11:23.493][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-02-05 19:11:23.494][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-02-05 19:11:23.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:23.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:23.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:23.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:23.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:23.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:23.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 19:11:23.514][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:23.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:23.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.518][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:23.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:23.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.524][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.526][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.528][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.530][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.536][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.537][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.540][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.542][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.546][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.547][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.550][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.551][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.555][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.557][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.559][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.575][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.577][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.580][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.588][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.589][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.591][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.592][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.597][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.599][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.601][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.602][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.607][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.608][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.610][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.612][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.617][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.619][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.621][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.623][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.628][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:23.630][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:23.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.632][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.633][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:23.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:23.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.639][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.640][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.643][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.649][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.651][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.653][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.662][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.668][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:23.669][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:23.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.671][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.672][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:23.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:23.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.677][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:23.678][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:23.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.680][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.681][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:23.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:23.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.686][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.687][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.689][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.691][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.696][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:23.697][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.699][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.700][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:23.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:23.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:23.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:23.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:23.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:23.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:23.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.720][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.725][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.730][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:23.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.735][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.739][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.751][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:23.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:23.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:23.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.784][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.789][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.794][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:23.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.798][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.803][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.809][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:23.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.814][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.819][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.824][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:23.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.829][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:23.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:23.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.834][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:23.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:23.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.842][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:23.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:23.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:23.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:23.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:23.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:23.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:23.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:23.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.861][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.866][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:23.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:23.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.883][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.888][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.893][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.898][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:23.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:23.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:23.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:23.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:23.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:23.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:23.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:23.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.937][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.942][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.947][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:23.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.951][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.956][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.961][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:23.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.965][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.970][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.974][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:23.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:23.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.978][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:23.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:23.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:23.996][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:23.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:23.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.002][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.007][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.012][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.027][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:24.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:24.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.031][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:24.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:24.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:24.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:24.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.040][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:24.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:24.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:24.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:24.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:24.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:24.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:24.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:24.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:24.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:24.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:24.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:24.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:24.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:24.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.076][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-02-05 19:11:24.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-02-05 19:11:24.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-02-05 19:11:24.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-02-05 19:11:24.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-02-05 19:11:24.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-02-05 19:11:24.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-02-05 19:11:24.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 19:11:24.109][biodb::testThat]
biodb.INFO [2025-02-05 19:11:24.110][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-02-05 19:11:24.111][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:24.113][biodb::testThat]
biodb.TRACE[2025-02-05 19:11:24.117][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.118][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.121][ef$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.122][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-02-05 19:11:24.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.166][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.180][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-02-05 19:11:24.182][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-02-05 19:11:24.183][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-02-05 19:11:24.184][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-02-05 19:11:24.187][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.189][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.191][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:24.193][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.194][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:24.196][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:24.197][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:24.198][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:24.200][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:24.201][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-02-05 19:11:24.202][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-02-05 19:11:24.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.224][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-02-05 19:11:24.225][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-02-05 19:11:24.227][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-02-05 19:11:24.245][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:24.247][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:24.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.250][ef$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.251][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-02-05 19:11:24.271][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:24.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:24.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.277][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:24.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:24.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.282][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:24.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:24.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.299][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2025-02-05 19:11:24.369][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-02-05 19:11:24.371][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-02-05 19:11:24.372][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-02-05 19:11:24.390][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.392][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.394][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:24.396][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.397][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:24.418][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:24.420][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:24.421][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:24.423][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:24.425][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-02-05 19:11:24.426][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-02-05 19:11:24.429][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:24.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:24.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.435][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:24.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:24.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.440][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:24.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:24.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.452][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:24.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:24.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.457][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-02-05 19:11:24.458][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-02-05 19:11:24.459][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-02-05 19:11:24.476][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.477][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.480][ef$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.481][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-02-05 19:11:24.499][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.504][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.509][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.517][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-02-05 19:11:24.518][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-02-05 19:11:24.519][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-02-05 19:11:24.520][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-02-05 19:11:24.522][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.525][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.527][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:24.529][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.530][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:24.532][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:24.533][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:24.535][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:24.536][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:24.537][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-02-05 19:11:24.538][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-02-05 19:11:24.540][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.544][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.549][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.553][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:24.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.558][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-02-05 19:11:24.559][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-02-05 19:11:24.560][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-02-05 19:11:24.584][biodb::testThat]
biodb.INFO [2025-02-05 19:11:24.586][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-02-05 19:11:24.587][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:24.588][biodb::testThat]
biodb.TRACE[2025-02-05 19:11:24.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.631][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-02-05 19:11:24.633][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-02-05 19:11:24.634][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-02-05 19:11:24.637][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.647][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.650][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:24.652][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:24.653][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:24.655][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:24.657][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:24.658][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:24.659][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:24.660][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-02-05 19:11:24.661][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-02-05 19:11:24.663][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:24.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:24.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:24.678][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-02-05 19:11:24.679][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-02-05 19:11:24.698][biodb::testThat]
biodb.INFO [2025-02-05 19:11:24.700][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-02-05 19:11:24.701][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:24.702][biodb::testThat]
biodb.TRACE[2025-02-05 19:11:24.727][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 19:11:24.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 19:11:24.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.733][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 19:11:24.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 19:11:24.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.738][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 19:11:24.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 19:11:24.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.743][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 19:11:24.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 19:11:24.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.806][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 19:11:24.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 19:11:24.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.812][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 19:11:24.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 19:11:24.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.817][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 19:11:24.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 19:11:24.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:24.821][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 19:11:24.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 19:11:24.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:24.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 19:11:24.834][biodb::testThat]
biodb.INFO [2025-02-05 19:11:24.836][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-02-05 19:11:24.837][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:24.838][biodb::testThat]
biodb.INFO [2025-02-05 19:11:24.851][biodb::testThat]
biodb.INFO [2025-02-05 19:11:24.852][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-02-05 19:11:24.854][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:24.855][biodb::testThat]
biodb.INFO [2025-02-05 19:11:24.867][biodb::testThat]
biodb.INFO [2025-02-05 19:11:24.869][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-02-05 19:11:24.870][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:24.872][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:24.877][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-02-05 19:11:27.041][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-02-05 19:11:27.086][biodb::testThat]
biodb.INFO [2025-02-05 19:11:27.087][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-02-05 19:11:27.089][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:27.090][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:27.659][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-02-05 19:11:27.693][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:27.695][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:27.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.698][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.700][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:27.701][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:27.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.704][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.705][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:27.707][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:27.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.709][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 19:11:27.711][biodb::testThat]
biodb.INFO [2025-02-05 19:11:27.713][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-02-05 19:11:27.714][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:27.715][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:27.718][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-02-05 19:11:27.796][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-02-05 19:11:27.798][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:27.801][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-02-05 19:11:27.824][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-02-05 19:11:27.826][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 19:11:27.828][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 19:11:27.829][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 19:11:27.832][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:27.834][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-02-05 19:11:27.835][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-02-05 19:11:27.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:27.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:27.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:27.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:27.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:27.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:27.853][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.TRACE[2025-02-05 19:11:27.856][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:27.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:27.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.862][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:27.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:27.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:27.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:27.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:27.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:27.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:27.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:27.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:27.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:27.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:27.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:27.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:27.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:27.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:27.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:27.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:27.899][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-02-05 19:11:27.900][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-02-05 19:11:27.958][biodb::testThat]
biodb.INFO [2025-02-05 19:11:27.960][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-02-05 19:11:27.961][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:27.963][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:27.973][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-02-05 19:11:27.975][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-02-05 19:11:27.977][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-02-05 19:11:27.980][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:27.982][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-02-05 19:11:27.985][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-02-05 19:11:27.987][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 19:11:27.988][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 19:11:27.990][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 19:11:27.992][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:27.994][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-02-05 19:11:27.995][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-02-05 19:11:27.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:27.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:27.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 19:11:28.010][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:28.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:28.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.015][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:28.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:28.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:28.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:28.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:28.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:28.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:28.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:28.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:28.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:28.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:28.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:28.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:28.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:28.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:28.050][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-02-05 19:11:28.051][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-02-05 19:11:28.052][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-02-05 19:11:28.072][biodb::testThat]
biodb.INFO [2025-02-05 19:11:28.074][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-02-05 19:11:28.075][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:28.077][biodb::testThat]
biodb.INFO [2025-02-05 19:11:28.118][biodb::testThat]
biodb.INFO [2025-02-05 19:11:28.119][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-02-05 19:11:28.121][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:28.122][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:28.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:28.127][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:28.129][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:28.130][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:28.132][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:28.134][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:28.135][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:28.136][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:28.137][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-02-05 19:11:28.148][biodb::testThat]
biodb.INFO [2025-02-05 19:11:28.150][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-02-05 19:11:28.151][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:28.152][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:28.155][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:28.157][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:28.159][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:28.161][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:28.163][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:28.164][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:28.166][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:28.167][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:28.169][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-02-05 19:11:28.182][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:28.183][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:28.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.186][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.187][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:28.188][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:28.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.191][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:28.192][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:28.193][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:28.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:28.196][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 19:11:28.197][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 19:11:28.199][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-02-05 19:11:28.208][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-02-05 19:11:28.209][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 19:11:28.210][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.213][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.215][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.216][FUN] Functions in observer BiodbConfig: [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 [2025-02-05 19:11:28.222][biodb::testContext]
biodb.INFO [2025-02-05 19:11:28.223][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 19:11:28.224][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-02-05 19:11:28.226][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 19:11:28.227][biodb::testContext]
biodb.INFO [2025-02-05 19:11:28.233][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 19:11:28.235][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 19:11:28.240][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:28.242][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 19:11:28.243][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 19:11:28.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.248][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 19:11:28.249][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 19:11:28.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.253][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[2025-02-05 19:11:28.254][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 19:11:28.256][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 19:11:28.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.261][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 19:11:28.263][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 19:11:28.264][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 19:11:28.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.278][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 19:11:28.279][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 19:11:28.280][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 19:11:28.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.286][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 19:11:28.287][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 19:11:28.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.292][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 19:11:28.293][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 19:11:28.294][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 19:11:28.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.299][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 19:11:28.301][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 19:11:28.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.305][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 19:11:28.306][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 19:11:28.308][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 19:11:28.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.313][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 19:11:28.314][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 19:11:28.315][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 19:11:28.316][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 19:11:28.317][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 19:11:28.319][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 19:11:28.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.323][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 19:11:28.325][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 19:11:28.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.329][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 19:11:28.330][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 19:11:28.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.336][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 19:11:28.337][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 19:11:28.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.341][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 19:11:28.342][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 19:11:28.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.347][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 19:11:28.348][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 19:11:28.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.353][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 19:11:28.354][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 19:11:28.388][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 19:11:28.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.394][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 19:11:28.396][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 19:11:28.397][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 19:11:28.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.404][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 19:11:28.406][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.407][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-05 19:11:28.409][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.410][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:28.412][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.413][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.414][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.416][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.417][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 19:11:28.418][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:28.419][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.421][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 19:11:28.422][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:28.423][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.424][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.426][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:28.426][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 19:11:28.426][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 19:11:28.426][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 19:11:28.426][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 19:11:28.427][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:28.429][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.430][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.431][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:28.432][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.433][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.434][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.435][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.437][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:28.438][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:28.439][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.440][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.442][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 19:11:28.444][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.452][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 19:11:28.453][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.455][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:28.457][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.458][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.459][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.461][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.462][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 19:11:28.464][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:28.465][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.466][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 19:11:28.467][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:28.469][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.470][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.471][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:28.471][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 19:11:28.471][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 19:11:28.471][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 19:11:28.471][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 19:11:28.472][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:28.473][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.474][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.474][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:28.475][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.476][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.478][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.479][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.480][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:28.481][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:28.482][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.483][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.485][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 19:11:28.487][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.489][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-05 19:11:28.490][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.491][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:28.493][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.494][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.495][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.496][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.497][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 19:11:28.498][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:28.500][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.501][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 19:11:28.502][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:28.504][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.505][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.506][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.507][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:28.508][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.509][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.510][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:28.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.513][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.514][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.515][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:28.516][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:28.517][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.518][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.519][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 19:11:28.521][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.522][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 19:11:28.523][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.525][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:28.526][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.527][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.530][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.531][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 19:11:28.533][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:28.534][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.535][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 19:11:28.536][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:28.536][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.538][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.539][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.540][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:28.541][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.542][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.543][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:28.544][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.545][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.546][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.547][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.548][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:28.549][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:28.550][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.551][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.552][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:28.553][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.562][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[2025-02-05 19:11:28.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.567][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[2025-02-05 19:11:28.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.594][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[2025-02-05 19:11:28.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.604][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[2025-02-05 19:11:28.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.625][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[2025-02-05 19:11:28.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.646][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 19:11:28.647][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 19:11:28.649][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 19:11:28.651][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 19:11:28.653][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 19:11:28.655][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 19:11:28.656][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 19:11:28.658][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 19:11:28.659][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 19:11:28.661][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 19:11:28.663][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 19:11:28.665][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 19:11:28.666][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 19:11:28.668][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 19:11:28.670][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 19:11:28.672][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 19:11:28.673][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 19:11:28.675][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 19:11:28.677][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 19:11:28.679][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 19:11:28.681][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 19:11:28.683][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 19:11:28.684][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 19:11:28.686][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 19:11:28.687][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 19:11:28.689][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 19:11:28.691][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 19:11:28.693][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 19:11:28.694][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 19:11:28.696][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 19:11:28.698][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 19:11:28.699][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 19:11:28.708][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 19:11:28.710][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 19:11:28.712][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 19:11:28.714][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 19:11:28.715][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 19:11:28.717][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 19:11:28.719][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 19:11:28.721][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 19:11:28.723][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 19:11:28.725][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 19:11:28.726][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 19:11:28.728][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 19:11:28.729][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 19:11:28.731][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 19:11:28.733][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 19:11:28.734][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 19:11:28.736][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 19:11:28.737][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 19:11:28.739][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 19:11:28.741][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 19:11:28.743][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 19:11:28.745][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 19:11:28.747][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 19:11:28.748][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 19:11:28.750][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 19:11:28.751][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 19:11:28.753][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 19:11:28.754][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 19:11:28.756][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 19:11:28.757][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 19:11:28.759][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 19:11:28.760][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 19:11:28.762][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 19:11:28.763][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 19:11:28.765][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 19:11:28.766][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 19:11:28.768][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 19:11:28.770][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 19:11:28.771][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 19:11:28.772][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 19:11:28.774][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 19:11:28.776][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 19:11:28.778][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 19:11:28.780][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 19:11:28.782][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 19:11:28.783][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 19:11:28.785][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 19:11:28.787][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 19:11:28.788][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 19:11:28.790][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 19:11:28.791][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 19:11:28.793][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 19:11:28.795][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 19:11:28.796][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:28.796][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.798][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.799][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[2025-02-05 19:11:28.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.855][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[2025-02-05 19:11:28.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.861][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[2025-02-05 19:11:28.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:28.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:28.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:28.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:28.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:28.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:28.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:28.929][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-02-05 19:11:28.931][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:28.933][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.934][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.935][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.936][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:28.937][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.939][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-02-05 19:11:28.940][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.941][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.942][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 19:11:28.943][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:28.944][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.945][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-02-05 19:11:28.946][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-02-05 19:11:28.948][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-02-05 19:11:28.950][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:28.951][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:28.951][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-02-05 19:11:28.951][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-02-05 19:11:28.953][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 19:11:28.961][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.962][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.964][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:28.966][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:28.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:28.969][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:28.970][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-02-05 19:11:28.970][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-02-05 19:11:28.971][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:28.972][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:28.973][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:28.974][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:28.975][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-02-05 19:11:28.977][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 19:11:28.978][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 19:11:28.980][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 19:11:28.982][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 19:11:28.985][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:28.987][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-02-05 19:11:28.988][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:28.989][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:28.991][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:28.992][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:28.993][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-02-05 19:11:28.994][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-02-05 19:11:28.995][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-02-05 19:11:28.995][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-02-05 19:11:28.996][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:28.997][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:28.998][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-02-05 19:11:28.999][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-02-05 19:11:29.000][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:29.002][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:29.003][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:29.004][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:29.005][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:29.006][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:29.008][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-02-05 19:11:29.010][biodb::testThat]
biodb.INFO [2025-02-05 19:11:29.010][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-02-05 19:11:29.011][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:29.012][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:29.016][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:29.018][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:29.020][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:29.022][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:29.023][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:29.024][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:29.026][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:29.027][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:29.028][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:29.032][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-02-05 19:11:29.040][biodb::testThat]
biodb.INFO [2025-02-05 19:11:29.041][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-02-05 19:11:29.042][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:29.043][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:29.046][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-02-05 19:11:29.047][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-02-05 19:11:29.050][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:29.051][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-02-05 19:11:29.053][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-02-05 19:11:29.055][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 19:11:29.057][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-02-05 19:11:29.059][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 19:11:29.060][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-02-05 19:11:29.062][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-02-05 19:11:29.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:29.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:29.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:29.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:29.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:29.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 19:11:29.079][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.080][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.082][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.107][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.108][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.110][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.111][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.117][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.118][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.120][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.122][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.126][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.127][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.130][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.131][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.135][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.137][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.139][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.146][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.148][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.150][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.152][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.157][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.158][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.160][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.162][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.167][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.168][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.170][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.172][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.177][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.179][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.181][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.183][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.187][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.189][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.191][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.193][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.198][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:29.199][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:29.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.201][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.203][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:29.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:29.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:29.208][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:29.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.211][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:29.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:29.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.218][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.221][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.234][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.235][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.237][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.242][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.244][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.246][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.253][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:29.255][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:29.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.257][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.259][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:29.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:29.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.264][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:29.265][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:29.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.268][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:29.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:29.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.274][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:29.275][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:29.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.277][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.279][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:29.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:29.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.300][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.304][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.308][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:29.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.313][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.318][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.323][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:29.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:29.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:29.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.367][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.373][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.378][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:29.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.383][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.406][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.410][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:29.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.416][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:29.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:29.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.423][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:29.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:29.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.429][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:29.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:29.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.434][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:29.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:29.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.438][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:29.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:29.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.443][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:29.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:29.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.448][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:29.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:29.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:29.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:29.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.457][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:29.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:29.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:29.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:29.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:29.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:29.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:29.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:29.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.489][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.493][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.498][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:29.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:29.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.543][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.548][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.552][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:29.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.557][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.561][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.566][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:29.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.571][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:29.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:29.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.576][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:29.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:29.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.581][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:29.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:29.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.586][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:29.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.606][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:29.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:29.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:29.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:29.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.639][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:29.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:29.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.644][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:29.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:29.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.662][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:29.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:29.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:29.692][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-02-05 19:11:29.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:29.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:29.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:29.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:29.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 19:11:29.715][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 19:11:29.717][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-02-05 19:11:29.719][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-02-05 19:11:29.720][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 19:11:29.722][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:29.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:29.724][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:29.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:29.726][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-05 19:11:29.732][biodb::testContext]
biodb.INFO [2025-02-05 19:11:29.733][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 19:11:29.734][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-02-05 19:11:29.736][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 19:11:29.737][biodb::testContext]
biodb.INFO [2025-02-05 19:11:29.742][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 19:11:29.744][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 19:11:29.749][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:29.751][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 19:11:29.753][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 19:11:29.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.756][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[2025-02-05 19:11:29.758][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 19:11:29.760][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 19:11:29.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.763][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 19:11:29.765][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 19:11:29.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.768][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[2025-02-05 19:11:29.770][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 19:11:29.771][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 19:11:29.772][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 19:11:29.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.776][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 19:11:29.777][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 19:11:29.779][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 19:11:29.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.782][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 19:11:29.784][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 19:11:29.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.789][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 19:11:29.790][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 19:11:29.792][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 19:11:29.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.806][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 19:11:29.807][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 19:11:29.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.812][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 19:11:29.814][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 19:11:29.815][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 19:11:29.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.820][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 19:11:29.821][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 19:11:29.822][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 19:11:29.824][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 19:11:29.824][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 19:11:29.826][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 19:11:29.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.831][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 19:11:29.832][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 19:11:29.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.836][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[2025-02-05 19:11:29.836][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 19:11:29.838][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 19:11:29.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.842][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 19:11:29.844][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 19:11:29.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.848][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 19:11:29.850][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 19:11:29.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.854][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 19:11:29.856][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 19:11:29.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.861][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 19:11:29.862][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 19:11:29.900][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 19:11:29.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.907][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 19:11:29.908][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 19:11:29.909][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 19:11:29.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:29.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:29.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:29.914][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 19:11:29.917][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:29.918][self$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[2025-02-05 19:11:29.920][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:29.921][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:29.922][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:29.924][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:29.925][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:29.926][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:29.928][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 19:11:29.929][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:29.930][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:29.932][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 19:11:29.933][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:29.934][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:29.936][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:29.937][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:29.937][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 19:11:29.937][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 19:11:29.937][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 19:11:29.937][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 19:11:29.939][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:29.940][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:29.941][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:29.943][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:29.944][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:29.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:29.946][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:29.947][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:29.949][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:29.950][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:29.951][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:29.953][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:29.954][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 19:11:29.957][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:29.958][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 19:11:29.959][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:29.961][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:29.962][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:29.963][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:29.965][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:29.966][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:29.967][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 19:11:29.969][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:29.971][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:29.972][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 19:11:29.974][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:29.976][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:29.983][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:29.985][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:29.985][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 19:11:29.985][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 19:11:29.985][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 19:11:29.985][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 19:11:29.987][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:29.989][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:29.990][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:29.991][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:29.993][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:29.994][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:29.995][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:29.996][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:29.998][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:29.999][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:30.000][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.001][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.003][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 19:11:30.005][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.006][self$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[2025-02-05 19:11:30.007][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.008][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:30.010][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.011][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.013][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.014][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.015][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 19:11:30.016][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:30.018][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.019][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 19:11:30.019][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:30.021][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.022][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.023][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.024][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:30.026][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:30.027][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:30.028][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:30.029][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:30.031][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:30.032][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.033][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.034][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:30.036][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:30.037][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.038][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.040][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 19:11:30.042][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.043][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 19:11:30.045][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.046][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:30.047][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.048][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.049][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.050][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.052][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 19:11:30.053][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:30.054][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.055][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 19:11:30.056][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:30.057][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.059][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.060][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.061][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 19:11:30.062][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:30.063][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:30.064][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:30.065][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:30.066][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:30.067][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.068][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.069][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:30.071][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:30.072][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.073][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.075][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:30.076][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.082][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[2025-02-05 19:11:30.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.087][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[2025-02-05 19:11:30.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.117][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[2025-02-05 19:11:30.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.130][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[2025-02-05 19:11:30.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.136][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[2025-02-05 19:11:30.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.146][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.DEBUG[2025-02-05 19:11:30.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.157][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[2025-02-05 19:11:30.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.161][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[2025-02-05 19:11:30.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.177][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[2025-02-05 19:11:30.178][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 19:11:30.180][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 19:11:30.182][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 19:11:30.184][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 19:11:30.186][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 19:11:30.187][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 19:11:30.189][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 19:11:30.191][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 19:11:30.192][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 19:11:30.193][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 19:11:30.195][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 19:11:30.197][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 19:11:30.199][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 19:11:30.201][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 19:11:30.202][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 19:11:30.204][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 19:11:30.205][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 19:11:30.207][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 19:11:30.209][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 19:11:30.210][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 19:11:30.212][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 19:11:30.214][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 19:11:30.216][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 19:11:30.218][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 19:11:30.220][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 19:11:30.222][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 19:11:30.224][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 19:11:30.226][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 19:11:30.228][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 19:11:30.230][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 19:11:30.231][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 19:11:30.232][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 19:11:30.234][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 19:11:30.235][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 19:11:30.236][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 19:11:30.238][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 19:11:30.246][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 19:11:30.248][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 19:11:30.249][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 19:11:30.251][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 19:11:30.252][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 19:11:30.253][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 19:11:30.255][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 19:11:30.257][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 19:11:30.258][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 19:11:30.260][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 19:11:30.262][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 19:11:30.264][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 19:11:30.265][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 19:11:30.267][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 19:11:30.268][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 19:11:30.270][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 19:11:30.272][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 19:11:30.274][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 19:11:30.275][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 19:11:30.276][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 19:11:30.278][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 19:11:30.280][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 19:11:30.281][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 19:11:30.283][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 19:11:30.284][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 19:11:30.286][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 19:11:30.287][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 19:11:30.289][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 19:11:30.290][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 19:11:30.292][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 19:11:30.294][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 19:11:30.296][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 19:11:30.298][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 19:11:30.300][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 19:11:30.301][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 19:11:30.303][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 19:11:30.305][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 19:11:30.307][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 19:11:30.308][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 19:11:30.310][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 19:11:30.311][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 19:11:30.312][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 19:11:30.314][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 19:11:30.315][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 19:11:30.317][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 19:11:30.319][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 19:11:30.321][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 19:11:30.323][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 19:11:30.325][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 19:11:30.327][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 19:11:30.328][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.330][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.391][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[2025-02-05 19:11:30.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.398][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[2025-02-05 19:11:30.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.427][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.DEBUG[2025-02-05 19:11:30.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 19:11:30.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:30.467][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-02-05 19:11:30.469][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:30.472][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.473][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.475][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.475][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 19:11:30.477][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.478][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-02-05 19:11:30.479][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.480][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.481][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 19:11:30.482][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 19:11:30.484][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.485][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-02-05 19:11:30.485][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-02-05 19:11:30.486][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-02-05 19:11:30.494][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 19:11:30.496][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 19:11:30.496][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-02-05 19:11:30.496][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-02-05 19:11:30.498][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 19:11:30.499][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:30.500][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:30.502][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 19:11:30.503][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 19:11:30.504][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 19:11:30.505][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 19:11:30.506][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-02-05 19:11:30.506][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-02-05 19:11:30.507][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:30.508][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:30.509][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 19:11:30.510][self$setPropertyValue]
biodb.DEBUG[2025-02-05 19:11:30.512][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-02-05 19:11:30.514][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 19:11:30.516][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 19:11:30.517][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 19:11:30.519][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 19:11:30.522][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:30.523][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-02-05 19:11:30.524][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:30.526][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:30.528][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:30.545][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:30.547][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-02-05 19:11:30.549][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-02-05 19:11:30.551][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-02-05 19:11:30.551][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-02-05 19:11:30.552][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 19:11:30.553][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 19:11:30.555][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-02-05 19:11:30.556][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-02-05 19:11:30.558][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-02-05 19:11:30.559][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:30.560][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:30.561][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:30.563][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-02-05 19:11:30.564][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 19:11:30.565][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-02-05 19:11:30.567][biodb::testThat]
biodb.INFO [2025-02-05 19:11:30.568][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-02-05 19:11:30.569][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 19:11:30.571][biodb::testThat]
biodb.DEBUG[2025-02-05 19:11:30.573][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-02-05 19:11:30.574][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-02-05 19:11:30.575][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-02-05 19:11:30.579][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:30.581][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:30.583][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:30.585][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:30.586][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:30.588][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:30.590][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:30.591][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:30.592][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:30.593][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-02-05 19:11:30.595][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-02-05 19:11:30.597][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-02-05 19:11:30.599][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-02-05 19:11:30.601][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:30.603][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-02-05 19:11:30.605][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-02-05 19:11:30.606][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 19:11:30.608][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-02-05 19:11:30.610][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 19:11:30.611][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-02-05 19:11:30.613][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-02-05 19:11:30.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:30.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:30.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:30.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:30.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:30.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:30.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 19:11:30.633][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:30.635][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:30.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.637][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:30.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:30.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.644][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:30.645][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:30.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.655][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.657][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:30.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.662][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.664][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.666][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.668][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.673][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.675][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.677][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.679][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.687][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.694][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.695][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.698][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.705][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:30.706][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:30.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.709][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.711][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:30.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:30.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.716][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:30.718][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:30.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.719][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.721][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:30.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:30.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.726][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.728][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.730][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.731][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.736][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.738][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.740][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.742][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.747][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:30.748][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:30.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.751][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.752][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:30.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:30.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.756][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:30.758][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:30.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.760][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:30.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.767][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:30.769][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:30.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.771][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:30.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:30.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.778][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:30.780][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:30.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.782][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:30.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:30.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.796][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:30.797][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:30.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.799][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.801][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:30.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:30.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.805][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:30.806][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:30.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.808][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.810][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:30.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:30.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.814][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:30.815][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:30.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.817][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.819][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:30.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:30.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.823][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:30.825][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:30.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.827][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.829][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:30.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:30.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:30.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:30.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:30.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:30.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:30.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:30.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.849][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.854][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.859][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:30.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.864][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.869][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.874][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:30.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:30.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:30.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.910][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.926][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.932][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:30.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.942][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.947][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:30.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.952][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:30.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:30.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.956][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:30.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:30.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.961][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:30.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:30.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.965][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:30.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:30.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.970][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:30.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:30.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.975][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:30.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:30.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:30.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:30.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.984][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:30.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:30.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:30.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:30.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:30.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:30.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:30.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:30.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:31.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:31.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:31.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.023][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.033][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.068][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.079][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.083][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.088][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.092][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.096][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.101][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:31.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:31.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:31.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:31.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.116][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:31.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:31.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.121][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:31.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.140][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:31.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.150][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.171][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.176][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.188][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:31.237][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-02-05 19:11:31.239][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.244][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.249][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.254][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:31.258][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-02-05 19:11:31.259][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-02-05 19:11:31.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:31.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:31.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:31.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:31.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:31.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:31.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:31.293][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-02-05 19:11:31.295][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-02-05 19:11:31.297][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:31.298][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-02-05 19:11:31.301][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-02-05 19:11:31.302][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 19:11:31.304][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-02-05 19:11:31.305][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 19:11:31.306][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-02-05 19:11:31.307][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-02-05 19:11:31.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:31.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:31.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:31.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:31.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:31.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:31.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 19:11:31.327][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.330][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.337][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.339][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.350][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.352][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.358][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.359][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.362][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.364][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.369][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.370][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.373][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.374][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.379][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.383][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.390][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.392][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.394][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.400][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.402][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.404][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.406][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.411][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.412][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.414][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.416][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.421][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.423][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.425][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.427][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.432][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.434][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.436][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.438][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.442][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:31.444][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:31.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.446][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.447][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:31.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:31.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.451][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:31.452][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:31.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.455][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:31.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:31.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.461][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.462][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.465][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.472][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.473][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.475][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.482][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.490][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.494][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.496][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.519][ef$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.521][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.524][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.527][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.532][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:31.533][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:31.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.536][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.537][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:31.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:31.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.542][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:31.543][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:31.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.546][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.547][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-02-05 19:11:31.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:31.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.569][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.574][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.580][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 19:11:31.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.584][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.589][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.594][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-02-05 19:11:31.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 19:11:31.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-02-05 19:11:31.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.629][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.634][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.638][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-02-05 19:11:31.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.643][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.662][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-02-05 19:11:31.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.667][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:31.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:31.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.672][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:31.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:31.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.678][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:31.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-02-05 19:11:31.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.684][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.689][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.693][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.697][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:31.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:31.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.702][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:31.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:31.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.707][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 19:11:31.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 19:11:31.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:31.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:31.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:31.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:31.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 19:11:31.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 19:11:31.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.741][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.746][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.750][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 19:11:31.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 19:11:31.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.777][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.788][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.794][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.799][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-02-05 19:11:31.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.803][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.808][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.813][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-02-05 19:11:31.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.818][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:31.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:31.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.823][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:31.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:31.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.828][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 19:11:31.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 19:11:31.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.833][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:31.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.848][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.853][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-02-05 19:11:31.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 19:11:31.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.860][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.864][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.870][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.875][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 19:11:31.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 19:11:31.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.885][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.889][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.900][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-02-05 19:11:31.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 19:11:31.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 19:11:31.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:31.943][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-02-05 19:11:31.944][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.950][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.954][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:31.959][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:31.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:31.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:31.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:31.964][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-02-05 19:11:31.965][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:31.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:31.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:31.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:31.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:31.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:31.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:31.980][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[2025-02-05 19:11:31.987][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-02-05 19:11:31.989][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-02-05 19:11:31.990][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-02-05 19:11:31.992][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:31.995][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:31.997][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:31.998][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:32.000][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:32.002][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:32.003][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:32.004][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:32.006][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:32.007][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-02-05 19:11:32.008][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-02-05 19:11:32.011][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.016][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.022][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.027][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.033][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.038][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.044][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:32.049][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-02-05 19:11:32.050][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-02-05 19:11:32.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:32.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:32.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:32.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:32.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:32.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:32.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 19:11:32.076][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.083][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.089][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.094][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.100][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.105][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.110][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:32.114][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-02-05 19:11:32.115][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-02-05 19:11:32.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:32.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:32.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:32.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:32.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:32.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:32.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 19:11:32.138][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-02-05 19:11:32.139][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-02-05 19:11:32.140][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-02-05 19:11:32.143][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:32.145][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:32.147][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-02-05 19:11:32.149][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-02-05 19:11:32.150][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-02-05 19:11:32.152][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-02-05 19:11:32.153][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-02-05 19:11:32.154][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-02-05 19:11:32.155][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-02-05 19:11:32.156][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-02-05 19:11:32.157][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-02-05 19:11:32.160][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.171][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.175][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.180][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.185][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.190][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:32.195][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-02-05 19:11:32.195][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-02-05 19:11:32.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:32.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:32.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:32.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:32.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:32.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:32.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 19:11:32.212][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.223][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.229][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.235][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.240][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.244][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 19:11:32.248][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-02-05 19:11:32.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-02-05 19:11:32.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 19:11:32.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 19:11:32.252][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-02-05 19:11:32.253][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-02-05 19:11:32.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 19:11:32.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:32.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:32.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:32.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:32.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:32.267][FUN] Functions in observer BiodbConfig: [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 [2025-02-05 19:11:32.279][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 19:11:32.280][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-02-05 19:11:32.282][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-02-05 19:11:32.283][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 19:11:32.284][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 19:11:32.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 19:11:32.287][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 19:11:32.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 19:11:32.289][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 19:11:32.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
 10.847   0.686  14.513

Example timings