Multiple platform build/check report for BioC 3.21 - CHECK results for biodbHmdb on kjohnson1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.2 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4823
palomino7	Windows Server 2022 Datacenter	x64	4.5.1 (2025-06-13 ucrt) -- "Great Square Root"	4565
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4603
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4544
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4579
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

CHECK results for biodbHmdb on kjohnson1

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: 1.14.0

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_1.14.0.tar.gz

StartedAt: 2025-08-08 13:40:22 -0400 (Fri, 08 Aug 2025)

EndedAt: 2025-08-08 13:41:16 -0400 (Fri, 08 Aug 2025)

EllapsedTime: 54.1 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_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.5.1 Patched (2025-06-14 r88325)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.14.0’
* 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 15.0.0 (clang-1500.0.40.1)’
* 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-arm64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** this is package ‘biodbHmdb’ version ‘1.14.0’
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.0.40.1)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -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 arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/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
installing to /Library/Frameworks/R.framework/Versions/4.5-arm64/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 version 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-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 [2025-08-08 13:40:59.632][biodb::testContext]
biodb.INFO [2025-08-08 13:40:59.637][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 13:40:59.638][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-08-08 13:40:59.640][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 13:40:59.642][biodb::testContext]
biodb.INFO [2025-08-08 13:40:59.644][biodb::testThat]
biodb.INFO [2025-08-08 13:40:59.646][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-08-08 13:40:59.647][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:40:59.648][biodb::testThat]
biodb.INFO [2025-08-08 13:40:59.789][biodb::testContext]
biodb.INFO [2025-08-08 13:40:59.791][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 13:40:59.792][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-08 13:40:59.793][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 13:40:59.794][biodb::testContext]
biodb.INFO [2025-08-08 13:40:59.807][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-08 13:40:59.809][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 13:40:59.820][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:40:59.821][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 13:40:59.822][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 13:40:59.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.827][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 13:40:59.856][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 13:40:59.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.860][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[2025-08-08 13:40:59.861][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 13:40:59.863][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 13:40:59.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.868][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 13:40:59.869][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 13:40:59.870][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 13:40:59.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.873][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 13:40:59.874][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 13:40:59.875][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 13:40:59.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.878][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 13:40:59.879][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 13:40:59.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.882][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 13:40:59.883][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 13:40:59.884][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 13:40:59.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.887][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 13:40:59.888][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 13:40:59.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.891][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 13:40:59.892][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 13:40:59.892][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 13:40:59.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.896][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 13:40:59.896][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 13:40:59.897][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 13:40:59.898][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 13:40:59.899][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 13:40:59.900][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 13:40:59.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.903][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 13:40:59.904][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 13:40:59.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.907][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 13:40:59.908][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 13:40:59.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.911][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 13:40:59.912][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 13:40:59.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.915][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 13:40:59.916][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-08 13:40:59.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.919][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 13:40:59.920][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 13:40:59.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.923][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 13:40:59.924][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 13:40:59.943][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 13:40:59.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.947][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 13:40:59.948][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 13:40:59.949][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 13:40:59.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:40:59.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:40:59.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:40:59.956][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 13:40:59.990][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.006][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-08 13:41:00.008][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.009][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:00.010][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.011][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.012][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.013][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.014][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 13:41:00.014][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:00.015][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.016][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 13:41:00.017][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:00.018][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.019][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.020][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:00.020][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 13:41:00.020][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 13:41:00.020][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 13:41:00.020][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 13:41:00.020][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:00.021][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.022][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.023][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:00.031][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.032][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.033][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.034][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.035][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:00.035][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:00.036][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.037][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.038][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 13:41:00.040][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.041][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 13:41:00.042][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.043][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:00.043][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.044][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.045][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.046][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.047][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 13:41:00.048][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:00.049][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.050][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 13:41:00.051][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:00.052][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.053][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.053][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:00.053][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 13:41:00.053][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 13:41:00.053][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 13:41:00.053][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 13:41:00.054][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:00.055][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.056][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.057][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:00.058][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.058][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.059][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.060][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.061][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:00.061][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:00.062][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.063][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.064][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 13:41:00.066][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.067][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-08 13:41:00.068][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.069][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:00.070][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.070][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.071][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.072][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.073][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 13:41:00.074][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:00.075][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.075][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 13:41:00.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:00.077][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.078][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.079][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.079][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:00.080][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.081][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.082][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:00.083][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.084][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.085][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.086][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:00.086][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:00.087][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.088][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.089][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 13:41:00.091][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.092][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 13:41:00.093][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.094][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:00.094][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.095][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.096][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.097][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.098][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 13:41:00.099][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:00.099][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.100][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 13:41:00.101][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:00.102][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.103][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.103][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.104][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:00.105][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.106][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.107][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:00.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.109][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.110][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.110][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:00.111][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:00.112][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.113][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.118][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:41:00.119][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.124][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[2025-08-08 13:41:00.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.141][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[2025-08-08 13:41:00.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.167][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[2025-08-08 13:41:00.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.193][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 13:41:00.198][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 13:41:00.200][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 13:41:00.201][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 13:41:00.202][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 13:41:00.203][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 13:41:00.205][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 13:41:00.206][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 13:41:00.207][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 13:41:00.208][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 13:41:00.209][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 13:41:00.211][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 13:41:00.212][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 13:41:00.213][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 13:41:00.215][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 13:41:00.216][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 13:41:00.218][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 13:41:00.220][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 13:41:00.221][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 13:41:00.223][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 13:41:00.224][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 13:41:00.225][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 13:41:00.227][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 13:41:00.228][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 13:41:00.229][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 13:41:00.230][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 13:41:00.232][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 13:41:00.233][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 13:41:00.236][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 13:41:00.237][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 13:41:00.238][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 13:41:00.240][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 13:41:00.241][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 13:41:00.242][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 13:41:00.243][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 13:41:00.245][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 13:41:00.246][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 13:41:00.247][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 13:41:00.248][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 13:41:00.250][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 13:41:00.251][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 13:41:00.252][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 13:41:00.253][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 13:41:00.255][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 13:41:00.256][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 13:41:00.257][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 13:41:00.258][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 13:41:00.259][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 13:41:00.261][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 13:41:00.262][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 13:41:00.263][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 13:41:00.264][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 13:41:00.265][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 13:41:00.267][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 13:41:00.268][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 13:41:00.269][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 13:41:00.270][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 13:41:00.271][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 13:41:00.272][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 13:41:00.274][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 13:41:00.275][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 13:41:00.276][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 13:41:00.277][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 13:41:00.278][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 13:41:00.280][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 13:41:00.281][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 13:41:00.282][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 13:41:00.283][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 13:41:00.284][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 13:41:00.286][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 13:41:00.287][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 13:41:00.288][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 13:41:00.289][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 13:41:00.290][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 13:41:00.291][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 13:41:00.293][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 13:41:00.295][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 13:41:00.296][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 13:41:00.297][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 13:41:00.299][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 13:41:00.300][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 13:41:00.301][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 13:41:00.302][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 13:41:00.308][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 13:41:00.310][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-08 13:41:00.314][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:41:00.315][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.317][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.337][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[2025-08-08 13:41:00.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.391][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[2025-08-08 13:41:00.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.434][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[2025-08-08 13:41:00.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:00.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:00.457][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-08 13:41:00.468][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:00.470][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.471][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.472][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.473][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:00.474][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.475][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-08 13:41:00.476][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.477][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.478][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 13:41:00.479][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:00.480][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.481][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-08 13:41:00.482][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-08 13:41:00.483][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-08 13:41:00.484][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:00.485][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:00.485][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-08 13:41:00.485][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-08 13:41:00.486][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 13:41:00.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.487][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.488][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:00.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:00.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:00.490][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:00.491][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 13:41:00.491][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-08 13:41:00.492][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:00.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:00.494][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:00.495][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:00.501][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-08 13:41:00.502][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 13:41:00.504][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 13:41:00.505][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 13:41:00.506][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 13:41:00.537][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:00.539][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-08 13:41:00.545][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:00.550][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:00.555][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:00.556][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:00.557][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-08 13:41:00.558][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-08 13:41:00.559][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 13:41:00.559][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-08 13:41:00.560][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:00.561][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:00.562][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-08 13:41:00.562][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-08 13:41:00.563][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:00.588][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:00.590][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:00.591][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:00.592][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:00.593][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:00.594][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-08 13:41:00.604][biodb::testThat]
biodb.INFO [2025-08-08 13:41:00.605][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-08 13:41:00.606][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:00.607][biodb::testThat]
biodb.TRACE[2025-08-08 13:41:00.612][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-08-08 13:41:00.614][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 13:41:00.619][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 13:41:00.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:00.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:00.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:00.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:00.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:00.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:00.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 13:41:00.658][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:00.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:00.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:00.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:00.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.681][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:00.682][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:00.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.684][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.709][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:00.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:00.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.714][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.714][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.716][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.717][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.722][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.723][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.727][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.730][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.732][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.740][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.741][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.742][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.757][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:00.758][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:00.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.759][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.761][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:00.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:00.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.765][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:00.766][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:00.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.767][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.769][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:00.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:00.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.772][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.773][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.776][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.780][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.780][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.782][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.783][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.787][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:00.788][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:00.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.789][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:00.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:00.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.794][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:00.795][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:00.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.796][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:00.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:00.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.801][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:00.802][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:00.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.804][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:00.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:00.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.809][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:00.809][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:00.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.811][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:00.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:00.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.816][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:00.817][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:00.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:00.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:00.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.824][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:00.825][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:00.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.828][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:00.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:00.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.832][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:00.832][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:00.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.834][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.835][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:00.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:00.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.839][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:00.840][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:00.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.842][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.844][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:00.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:00.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:00.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:00.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:00.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:00.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:00.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:00.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.898][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.902][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.905][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:00.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.909][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.912][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.916][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:00.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:00.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:00.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.949][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.954][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:00.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.958][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.966][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:00.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.971][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:00.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:00.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.975][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:00.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:00.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.978][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:00.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:00.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.982][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:00.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:00.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.985][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:00.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:00.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.988][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:00.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:00.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.995][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:00.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:00.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:00.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:00.999][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:01.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:01.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.002][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:01.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:01.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.038][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.042][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.045][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.066][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.069][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.073][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.076][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.079][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.083][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.086][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.090][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.093][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.096][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:01.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:01.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.100][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:01.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:01.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.103][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:01.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:01.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.106][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:01.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.120][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:01.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.168][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.181][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.188][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:01.215][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-08 13:41:01.219][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 13:41:01.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 13:41:01.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.223][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 13:41:01.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 13:41:01.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.226][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 13:41:01.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 13:41:01.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.231][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 13:41:01.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 13:41:01.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.266][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.304][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.307][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.311][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:01.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.336][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.337][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.360][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.364][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.367][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.371][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.372][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.374][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.375][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:01.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.404][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.405][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.407][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.420][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.424][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.427][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.431][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.432][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.433][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.434][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:01.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.458][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.460][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.477][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.481][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.484][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.488][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.489][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.491][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:01.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.522][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.527][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.529][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.531][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:01.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:01.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.548][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:01.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:01.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.553][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:01.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:01.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.559][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:01.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:01.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.563][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:01.564][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:01.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.566][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:01.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:01.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.578][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:01.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:01.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.583][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:01.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:01.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:01.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:01.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.595][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:01.596][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:01.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.599][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:01.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:01.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.610][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.614][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.618][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.621][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.622][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.623][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.624][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.648][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.650][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:01.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.673][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.680][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.681][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.682][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.683][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.695][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.699][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.703][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.706][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.707][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.708][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.709][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.722][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.726][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.729][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.733][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.734][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.735][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.736][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.748][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:01.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:01.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.752][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:01.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:01.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.756][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:01.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:01.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.759][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:01.760][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:01.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.761][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.762][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:01.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:01.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.788][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.789][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.790][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.814][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.825][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.825][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.827][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.841][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.845][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.849][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.852][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.853][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.855][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.856][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.870][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:01.873][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:01.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.875][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.880][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.881][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:01.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.883][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.888][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.889][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:01.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.897][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:01.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.900][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.907][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.911][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:01.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.914][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.920][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.921][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:01.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.923][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.928][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.929][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:01.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.930][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.937][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.939][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:01.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.941][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.946][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:01.948][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:01.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.949][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.957][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:01.958][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:01.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.969][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:01.970][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:01.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.974][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.979][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.990][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:01.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:01.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:01.999][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.000][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.002][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.007][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.008][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.015][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.017][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.024][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.025][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.027][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.032][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.033][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.035][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.040][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:02.041][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:02.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.043][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 13:41:02.051][biodb::testThat]
biodb.INFO [2025-08-08 13:41:02.052][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-08 13:41:02.053][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:02.054][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:02.072][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-08-08 13:41:02.082][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 13:41:02.089][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.091][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 13:41:02.094][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-08-08 13:41:02.095][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-08 13:41:02.099][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-08-08 13:41:02.100][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 13:41:02.127][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 13:41:02.128][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 13:41:02.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:02.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:02.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:02.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:02.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:02.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:02.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 13:41:02.145][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.148][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.162][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.163][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.167][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.168][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.172][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.173][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.175][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.176][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.180][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.182][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.184][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.186][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.193][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.198][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.199][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.206][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.206][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.208][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.209][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.213][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.215][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.217][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.219][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.225][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.226][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.227][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.232][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.233][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.235][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.239][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:02.240][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:02.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:02.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:02.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.246][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:02.247][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:02.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:02.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:02.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.253][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.254][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.260][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.261][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.263][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.268][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.269][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.270][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.271][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.279][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.280][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.282][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.284][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:02.288][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:02.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.291][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.292][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:02.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:02.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.298][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:02.301][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:02.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.312][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:02.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:02.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.326][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.329][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.333][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:02.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.337][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.342][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.345][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:02.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:02.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:02.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.377][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.380][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.384][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:02.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.387][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.391][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.394][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:02.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.400][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:02.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:02.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.403][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:02.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:02.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.407][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:02.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:02.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.410][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.414][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.417][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.422][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:02.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:02.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.428][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:02.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:02.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.433][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:02.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:02.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:02.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:02.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:02.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:02.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.452][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:02.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:02.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.468][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.471][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.476][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:02.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:02.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.497][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.505][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.508][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.512][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:02.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.515][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.518][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.522][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.525][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:02.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:02.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.528][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:02.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:02.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.532][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:02.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:02.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.535][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:02.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.542][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.550][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:02.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:02.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.569][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.572][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.576][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:02.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:02.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.586][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:02.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:02.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.593][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:02.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:02.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:02.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:02.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.622][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-08 13:41:02.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-08 13:41:02.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-08 13:41:02.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-08 13:41:02.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-08 13:41:02.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-08 13:41:02.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-08 13:41:02.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 13:41:02.647][biodb::testThat]
biodb.INFO [2025-08-08 13:41:02.649][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-08 13:41:02.650][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:02.651][biodb::testThat]
biodb.TRACE[2025-08-08 13:41:02.654][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.655][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.657][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.659][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-08-08 13:41:02.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.696][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.703][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-08-08 13:41:02.705][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-08-08 13:41:02.705][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-08 13:41:02.706][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-08 13:41:02.708][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.710][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.711][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:02.712][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.713][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:02.715][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:02.716][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:02.718][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:02.719][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:02.720][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 13:41:02.721][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 13:41:02.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.744][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:02.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:02.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.748][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 13:41:02.749][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 13:41:02.750][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-08-08 13:41:02.766][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.767][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.769][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.770][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-08-08 13:41:02.786][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.790][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.794][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.800][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[2025-08-08 13:41:02.856][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-08 13:41:02.857][private$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[2025-08-08 13:41:02.858][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-08-08 13:41:02.883][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.885][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.886][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:02.887][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.888][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:02.905][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:02.907][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:02.908][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:02.909][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:02.910][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 13:41:02.910][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 13:41:02.914][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.918][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.925][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:02.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:02.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.929][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 13:41:02.930][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 13:41:02.931][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-08-08 13:41:02.947][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.948][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.950][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.951][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-08-08 13:41:02.963][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.968][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:02.971][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:02.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:02.980][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-08-08 13:41:02.982][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-08-08 13:41:02.983][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-08-08 13:41:02.984][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-08-08 13:41:02.986][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.987][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.988][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:02.990][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:02.991][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:02.992][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:02.993][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:02.994][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:02.995][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:02.995][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 13:41:02.996][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 13:41:02.998][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:02.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:03.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.001][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:03.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:03.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.005][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:03.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:03.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.008][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:03.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:03.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:03.011][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 13:41:03.012][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 13:41:03.013][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-08-08 13:41:03.035][biodb::testThat]
biodb.INFO [2025-08-08 13:41:03.037][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-08 13:41:03.037][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:03.038][biodb::testThat]
biodb.TRACE[2025-08-08 13:41:03.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:03.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:03.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:03.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:03.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:03.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:03.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:03.075][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-08-08 13:41:03.076][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-08 13:41:03.077][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-08 13:41:03.081][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:03.083][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:03.085][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:03.086][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:03.087][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:03.088][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:03.089][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:03.090][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:03.091][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:03.092][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 13:41:03.094][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 13:41:03.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:03.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:03.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:03.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:03.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.105][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:03.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:03.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:03.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:03.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:03.111][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 13:41:03.112][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-08-08 13:41:03.128][biodb::testThat]
biodb.INFO [2025-08-08 13:41:03.129][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-08 13:41:03.130][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:03.131][biodb::testThat]
biodb.TRACE[2025-08-08 13:41:03.154][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 13:41:03.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 13:41:03.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.158][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 13:41:03.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 13:41:03.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.162][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 13:41:03.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 13:41:03.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.165][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 13:41:03.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 13:41:03.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.222][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 13:41:03.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 13:41:03.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.226][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-08 13:41:03.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-08 13:41:03.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.229][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-08 13:41:03.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-08 13:41:03.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:03.233][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-08 13:41:03.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-08 13:41:03.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:03.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 13:41:03.244][biodb::testThat]
biodb.INFO [2025-08-08 13:41:03.245][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-08 13:41:03.246][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:03.247][biodb::testThat]
biodb.INFO [2025-08-08 13:41:03.257][biodb::testThat]
biodb.INFO [2025-08-08 13:41:03.258][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-08 13:41:03.259][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:03.260][biodb::testThat]
biodb.INFO [2025-08-08 13:41:03.269][biodb::testThat]
biodb.INFO [2025-08-08 13:41:03.270][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-08 13:41:03.271][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:03.272][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:03.276][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-08-08 13:41:04.405][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-08-08 13:41:04.742][biodb::testThat]
biodb.INFO [2025-08-08 13:41:04.743][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-08 13:41:04.744][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:04.745][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:05.204][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-08-08 13:41:05.408][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:05.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:05.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.411][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.412][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:05.413][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:05.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.415][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.416][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:05.417][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:05.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.418][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 13:41:05.420][biodb::testThat]
biodb.INFO [2025-08-08 13:41:05.421][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-08 13:41:05.422][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:05.423][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:05.425][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-08 13:41:05.487][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 13:41:05.489][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.490][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 13:41:05.506][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-08-08 13:41:05.508][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-08 13:41:05.509][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-08 13:41:05.510][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 13:41:05.511][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.513][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 13:41:05.514][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 13:41:05.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:05.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:05.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:05.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:05.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:05.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 13:41:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:05.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:05.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.575][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:05.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:05.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:05.606][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-08 13:41:05.607][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-08 13:41:05.626][biodb::testThat]
biodb.INFO [2025-08-08 13:41:05.628][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-08 13:41:05.629][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:05.630][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:05.638][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-08-08 13:41:05.640][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-08-08 13:41:05.641][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 13:41:05.643][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.644][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 13:41:05.646][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-08-08 13:41:05.647][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-08 13:41:05.648][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-08 13:41:05.649][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 13:41:05.650][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.651][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 13:41:05.652][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 13:41:05.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:05.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:05.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:05.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:05.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:05.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 13:41:05.667][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:05.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:05.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.671][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:05.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:05.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:05.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:05.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:05.705][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-08 13:41:05.706][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-08 13:41:05.707][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-08-08 13:41:05.723][biodb::testThat]
biodb.INFO [2025-08-08 13:41:05.724][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-08 13:41:05.725][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:05.726][biodb::testThat]
biodb.INFO [2025-08-08 13:41:05.752][biodb::testThat]
biodb.INFO [2025-08-08 13:41:05.753][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-08 13:41:05.754][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:05.755][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:05.758][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.760][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.762][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:05.764][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.765][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:05.766][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:05.767][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:05.768][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:05.769][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-08-08 13:41:05.778][biodb::testThat]
biodb.INFO [2025-08-08 13:41:05.779][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-08 13:41:05.780][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:05.781][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:05.783][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.785][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.786][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:05.788][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:05.789][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:05.790][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:05.791][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:05.792][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:05.794][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-08-08 13:41:05.803][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:05.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:05.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.806][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.807][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:05.808][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:05.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.810][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:05.811][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:05.812][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:05.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:05.813][ef$get] fields variable is a list.
biodb.INFO [2025-08-08 13:41:05.814][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-08 13:41:05.815][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-08 13:41:05.833][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-08 13:41:05.835][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 13:41:05.836][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:05.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:05.837][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:05.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:05.839][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.840][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.INFO [2025-08-08 13:41:05.844][biodb::testContext]
biodb.INFO [2025-08-08 13:41:05.845][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 13:41:05.846][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-08-08 13:41:05.847][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 13:41:05.848][biodb::testContext]
biodb.INFO [2025-08-08 13:41:05.852][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-08 13:41:05.855][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 13:41:05.860][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:41:05.861][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 13:41:05.862][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 13:41:05.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.866][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 13:41:05.867][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 13:41:05.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.870][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 13:41:05.871][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 13:41:05.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.874][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 13:41:05.874][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 13:41:05.875][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 13:41:05.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.878][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 13:41:05.879][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 13:41:05.880][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 13:41:05.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.883][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 13:41:05.884][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 13:41:05.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.887][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 13:41:05.888][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 13:41:05.889][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 13:41:05.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.891][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 13:41:05.892][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 13:41:05.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.895][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 13:41:05.896][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 13:41:05.897][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 13:41:05.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.900][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 13:41:05.901][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 13:41:05.901][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 13:41:05.902][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 13:41:05.903][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 13:41:05.904][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 13:41:05.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.908][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 13:41:05.910][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 13:41:05.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.914][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 13:41:05.915][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 13:41:05.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.918][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 13:41:05.919][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 13:41:05.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.922][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 13:41:05.923][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-08 13:41:05.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.926][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 13:41:05.927][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 13:41:05.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.936][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 13:41:05.938][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 13:41:05.957][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 13:41:05.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.963][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 13:41:05.964][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 13:41:05.965][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 13:41:05.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:05.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:05.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:05.968][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 13:41:05.970][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:05.985][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-08 13:41:05.987][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:05.988][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:05.989][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:05.989][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:05.990][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:05.991][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:05.992][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 13:41:05.994][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:05.995][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:05.997][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 13:41:05.998][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:05.999][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.000][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.001][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:06.001][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 13:41:06.001][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 13:41:06.001][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 13:41:06.001][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 13:41:06.002][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:06.002][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.003][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.004][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:06.006][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.007][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.008][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.010][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.011][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:06.012][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:06.013][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.014][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.015][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 13:41:06.016][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.018][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 13:41:06.019][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.020][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:06.022][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.023][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.024][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.025][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.026][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 13:41:06.027][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:06.028][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.029][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 13:41:06.029][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:06.030][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.031][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.032][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:06.032][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 13:41:06.032][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 13:41:06.032][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 13:41:06.032][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 13:41:06.033][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:06.034][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.035][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.035][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:06.036][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.037][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.038][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.039][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.040][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:06.040][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:06.041][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.042][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.043][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 13:41:06.045][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.046][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-08 13:41:06.047][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.048][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:06.049][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.050][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.051][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.052][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.053][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 13:41:06.054][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:06.054][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.055][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 13:41:06.063][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:06.065][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.066][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.068][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.069][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:06.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.072][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.073][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:06.074][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.075][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.076][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.077][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.078][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:06.078][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:06.079][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.080][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.081][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 13:41:06.083][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.084][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 13:41:06.085][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.086][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:06.087][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.087][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.088][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.089][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.090][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 13:41:06.091][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:06.092][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.093][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 13:41:06.093][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:06.094][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.095][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.096][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.097][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:06.098][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.098][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.099][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:06.100][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.101][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.101][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.102][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.103][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:06.104][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:06.105][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.106][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.108][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:41:06.109][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.124][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[2025-08-08 13:41:06.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.146][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[2025-08-08 13:41:06.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.188][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 13:41:06.190][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 13:41:06.191][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 13:41:06.192][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 13:41:06.193][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 13:41:06.195][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 13:41:06.196][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 13:41:06.197][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 13:41:06.198][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 13:41:06.200][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 13:41:06.201][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 13:41:06.202][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 13:41:06.203][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 13:41:06.205][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 13:41:06.206][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 13:41:06.208][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 13:41:06.210][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 13:41:06.212][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 13:41:06.213][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 13:41:06.215][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 13:41:06.216][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 13:41:06.217][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 13:41:06.218][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 13:41:06.220][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 13:41:06.221][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 13:41:06.222][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 13:41:06.223][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 13:41:06.224][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 13:41:06.226][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 13:41:06.227][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 13:41:06.228][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 13:41:06.229][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 13:41:06.230][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 13:41:06.232][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 13:41:06.233][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 13:41:06.234][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 13:41:06.235][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 13:41:06.236][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 13:41:06.238][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 13:41:06.239][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 13:41:06.240][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 13:41:06.241][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 13:41:06.242][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 13:41:06.243][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 13:41:06.245][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 13:41:06.246][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 13:41:06.247][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 13:41:06.248][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 13:41:06.249][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 13:41:06.251][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 13:41:06.252][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 13:41:06.253][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 13:41:06.255][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 13:41:06.257][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 13:41:06.259][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 13:41:06.260][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 13:41:06.262][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 13:41:06.271][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 13:41:06.274][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 13:41:06.276][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 13:41:06.277][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 13:41:06.279][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 13:41:06.280][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 13:41:06.281][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 13:41:06.283][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 13:41:06.284][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 13:41:06.285][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 13:41:06.286][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 13:41:06.288][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 13:41:06.289][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 13:41:06.290][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 13:41:06.292][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 13:41:06.293][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 13:41:06.294][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 13:41:06.295][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 13:41:06.297][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 13:41:06.298][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 13:41:06.299][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 13:41:06.300][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 13:41:06.302][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 13:41:06.303][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 13:41:06.304][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 13:41:06.305][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 13:41:06.306][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 13:41:06.310][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-08 13:41:06.311][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:41:06.313][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.314][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.337][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[2025-08-08 13:41:06.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.385][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[2025-08-08 13:41:06.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:06.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:06.417][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-08 13:41:06.419][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:06.421][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.422][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.423][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.423][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:06.424][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.425][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-08 13:41:06.426][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.427][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.428][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 13:41:06.428][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:06.429][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.430][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-08 13:41:06.431][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-08 13:41:06.432][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-08 13:41:06.433][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:06.434][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:06.434][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-08 13:41:06.434][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-08 13:41:06.435][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 13:41:06.435][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.436][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.437][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:06.438][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:06.439][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:06.440][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:06.441][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 13:41:06.441][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-08 13:41:06.442][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:06.443][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:06.443][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:06.444][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:06.446][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-08 13:41:06.447][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 13:41:06.449][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 13:41:06.451][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 13:41:06.452][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 13:41:06.456][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:06.457][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-08 13:41:06.458][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:06.460][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:06.462][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:06.462][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:06.464][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-08 13:41:06.465][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-08 13:41:06.466][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 13:41:06.466][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-08 13:41:06.467][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:06.474][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:06.476][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-08 13:41:06.477][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-08 13:41:06.478][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:06.479][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:06.481][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:06.482][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:06.483][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:06.485][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:06.486][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-08 13:41:06.488][biodb::testThat]
biodb.INFO [2025-08-08 13:41:06.489][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-08-08 13:41:06.490][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:06.490][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:06.494][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:06.496][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:06.497][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:06.498][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:06.499][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:06.500][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:06.501][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:06.502][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:06.503][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:06.506][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-08-08 13:41:06.512][biodb::testThat]
biodb.INFO [2025-08-08 13:41:06.513][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-08-08 13:41:06.514][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:06.515][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:06.517][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-08-08 13:41:06.518][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 13:41:06.520][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:06.521][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 13:41:06.523][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-08-08 13:41:06.524][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-08 13:41:06.527][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-08 13:41:06.528][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 13:41:06.530][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 13:41:06.531][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 13:41:06.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:06.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:06.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:06.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:06.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:06.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:06.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 13:41:06.546][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.547][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.549][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.553][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.554][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.557][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.560][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.561][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.563][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.564][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.568][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.569][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.571][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.575][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.576][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.589][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.590][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.598][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.599][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.600][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.602][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.605][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.606][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.608][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.609][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.612][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.613][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.616][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.619][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.620][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.623][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.626][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:06.627][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:06.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.629][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.630][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:06.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:06.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.633][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:06.634][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:06.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.635][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:06.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:06.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.640][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.641][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.643][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.648][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.649][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.651][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.655][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.656][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.659][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.664][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:06.665][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:06.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.667][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.668][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:06.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:06.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.671][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:06.672][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:06.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.675][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:06.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:06.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.679][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:06.680][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:06.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.681][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.689][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:06.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:06.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.706][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.709][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.712][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:06.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.716][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.719][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.723][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:06.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:06.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:06.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.749][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.754][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.757][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:06.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.761][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.764][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.768][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:06.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.771][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:06.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:06.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.775][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:06.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:06.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.779][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:06.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:06.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.782][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:06.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:06.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.794][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:06.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:06.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.798][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:06.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:06.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.801][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:06.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:06.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.805][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:06.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:06.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.808][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:06.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:06.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:06.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:06.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.815][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:06.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:06.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:06.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:06.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.832][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.836][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.839][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:06.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:06.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.860][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.864][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.867][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.870][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:06.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.874][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.878][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.884][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:06.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.896][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:06.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:06.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.899][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:06.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:06.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.903][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:06.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:06.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.906][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:06.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.921][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:06.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:06.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:06.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:06.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.944][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:06.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:06.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.948][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:06.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:06.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.955][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:06.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:06.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:06.979][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-08-08 13:41:06.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:06.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:06.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:06.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:06.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:07.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-08 13:41:07.008][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-08 13:41:07.009][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-08 13:41:07.010][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-08 13:41:07.011][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 13:41:07.012][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.014][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.016][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-08 13:41:07.022][biodb::testContext]
biodb.INFO [2025-08-08 13:41:07.023][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 13:41:07.024][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-08-08 13:41:07.025][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-08 13:41:07.026][biodb::testContext]
biodb.INFO [2025-08-08 13:41:07.031][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-08 13:41:07.033][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-08 13:41:07.038][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:41:07.040][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-08 13:41:07.041][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-08 13:41:07.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.044][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-08 13:41:07.045][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-08 13:41:07.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.048][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-08 13:41:07.049][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-08 13:41:07.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.052][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-08 13:41:07.053][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-08 13:41:07.054][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-08 13:41:07.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.057][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-08 13:41:07.058][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-08 13:41:07.059][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-08 13:41:07.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.062][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-08 13:41:07.063][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-08 13:41:07.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.067][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-08 13:41:07.068][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-08 13:41:07.069][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-08 13:41:07.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.074][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-08 13:41:07.075][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-08 13:41:07.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.079][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-08 13:41:07.080][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-08 13:41:07.081][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-08 13:41:07.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.084][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-08 13:41:07.084][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-08 13:41:07.085][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-08 13:41:07.086][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-08 13:41:07.087][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-08 13:41:07.088][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-08 13:41:07.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.091][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-08 13:41:07.092][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-08 13:41:07.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.095][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-08 13:41:07.095][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-08 13:41:07.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.098][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-08 13:41:07.099][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-08 13:41:07.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.110][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-08 13:41:07.111][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-08 13:41:07.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.114][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-08 13:41:07.115][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-08 13:41:07.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.117][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[2025-08-08 13:41:07.118][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-08 13:41:07.119][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-08 13:41:07.135][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-08 13:41:07.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.139][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-08 13:41:07.140][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-08 13:41:07.141][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-08 13:41:07.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.144][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-08 13:41:07.146][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.147][self$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[2025-08-08 13:41:07.148][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.149][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:07.150][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.151][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.152][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.152][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.153][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 13:41:07.154][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:07.155][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.156][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-08 13:41:07.157][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:07.158][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.158][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.159][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:07.159][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 13:41:07.159][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 13:41:07.159][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 13:41:07.159][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 13:41:07.160][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:07.161][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.162][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.163][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:07.163][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.164][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.165][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.166][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.167][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:07.168][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:07.168][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.169][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.170][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-08 13:41:07.172][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.173][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 13:41:07.174][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.175][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:07.176][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.177][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.177][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.178][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.179][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 13:41:07.180][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:07.181][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.182][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-08 13:41:07.183][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:07.184][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.185][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.185][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:07.185][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-08 13:41:07.185][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-08 13:41:07.185][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-08 13:41:07.185][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-08 13:41:07.186][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:07.187][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.188][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.189][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:07.190][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.190][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.191][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.192][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.194][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:07.195][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:07.196][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.198][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.199][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-08 13:41:07.202][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.203][self$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[2025-08-08 13:41:07.204][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.205][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:07.206][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.207][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.208][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.209][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.210][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-08 13:41:07.211][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:07.212][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.213][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-08 13:41:07.214][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:07.215][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.215][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.224][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.226][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:07.227][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.230][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:07.232][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.233][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.235][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.236][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.237][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:07.239][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:07.240][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.241][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.242][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-08 13:41:07.244][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.245][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-08 13:41:07.246][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.246][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:07.247][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.248][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.249][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.250][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.251][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-08 13:41:07.251][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:07.254][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.255][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-08 13:41:07.257][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:07.258][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.259][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.260][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.261][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-08 13:41:07.262][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.263][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.263][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:07.264][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.265][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.266][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.267][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.268][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:07.268][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:07.269][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.270][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.271][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:41:07.272][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.284][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[2025-08-08 13:41:07.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.307][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[2025-08-08 13:41:07.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.311][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[2025-08-08 13:41:07.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.345][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[2025-08-08 13:41:07.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.351][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[2025-08-08 13:41:07.352][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-08 13:41:07.354][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-08 13:41:07.356][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-08 13:41:07.358][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-08 13:41:07.359][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-08 13:41:07.361][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 13:41:07.362][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-08 13:41:07.363][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-08 13:41:07.365][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-08 13:41:07.366][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 13:41:07.367][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 13:41:07.369][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-08 13:41:07.370][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-08 13:41:07.371][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-08 13:41:07.373][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-08 13:41:07.374][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 13:41:07.375][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-08 13:41:07.376][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-08 13:41:07.378][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-08 13:41:07.379][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-08 13:41:07.380][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-08 13:41:07.381][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-08 13:41:07.382][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-08 13:41:07.384][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-08 13:41:07.385][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-08 13:41:07.386][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-08 13:41:07.387][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-08 13:41:07.388][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-08 13:41:07.390][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-08 13:41:07.391][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-08 13:41:07.392][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-08 13:41:07.393][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-08 13:41:07.394][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-08 13:41:07.395][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-08 13:41:07.397][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-08 13:41:07.398][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-08 13:41:07.399][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-08 13:41:07.400][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-08 13:41:07.401][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-08 13:41:07.402][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-08 13:41:07.404][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-08 13:41:07.405][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-08 13:41:07.406][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-08 13:41:07.408][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-08 13:41:07.410][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-08 13:41:07.411][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-08 13:41:07.413][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-08 13:41:07.414][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-08 13:41:07.415][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-08 13:41:07.416][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-08 13:41:07.418][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-08 13:41:07.419][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-08 13:41:07.420][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-08 13:41:07.421][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-08 13:41:07.430][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-08 13:41:07.431][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-08 13:41:07.433][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-08 13:41:07.435][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-08 13:41:07.437][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-08 13:41:07.439][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-08 13:41:07.440][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-08 13:41:07.441][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-08 13:41:07.443][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-08 13:41:07.444][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-08 13:41:07.445][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-08 13:41:07.446][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-08 13:41:07.448][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-08 13:41:07.449][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-08 13:41:07.450][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-08 13:41:07.451][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-08 13:41:07.453][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-08 13:41:07.454][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-08 13:41:07.455][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-08 13:41:07.456][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-08 13:41:07.460][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-08 13:41:07.462][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-08 13:41:07.464][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-08 13:41:07.465][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-08 13:41:07.466][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-08 13:41:07.468][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-08 13:41:07.469][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-08 13:41:07.470][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-08 13:41:07.471][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-08 13:41:07.472][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-08 13:41:07.474][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-08 13:41:07.476][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-08 13:41:07.477][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.478][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:07.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.577][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[2025-08-08 13:41:07.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.583][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[2025-08-08 13:41:07.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-08 13:41:07.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.589][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[2025-08-08 13:41:07.592][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-08 13:41:07.594][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:07.596][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.597][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.598][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.599][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-08 13:41:07.600][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.601][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-08 13:41:07.602][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.603][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.604][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-08 13:41:07.604][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-08 13:41:07.605][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.606][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-08 13:41:07.607][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-08 13:41:07.608][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-08 13:41:07.609][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-08 13:41:07.610][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-08 13:41:07.610][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-08 13:41:07.610][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-08 13:41:07.611][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-08 13:41:07.612][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.613][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.614][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-08 13:41:07.615][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-08 13:41:07.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-08 13:41:07.616][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-08 13:41:07.617][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 13:41:07.617][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-08 13:41:07.618][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:07.619][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:07.620][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-08 13:41:07.621][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-08 13:41:07.622][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-08 13:41:07.624][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-08 13:41:07.625][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-08 13:41:07.627][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-08 13:41:07.628][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-08 13:41:07.639][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:07.641][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-08 13:41:07.642][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:07.644][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:07.645][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:07.646][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:07.647][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-08 13:41:07.648][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-08 13:41:07.649][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-08 13:41:07.649][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-08 13:41:07.650][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-08 13:41:07.651][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-08 13:41:07.652][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-08 13:41:07.652][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-08 13:41:07.653][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-08 13:41:07.655][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:07.656][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:07.657][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:07.658][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-08 13:41:07.659][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-08 13:41:07.660][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-08 13:41:07.662][biodb::testThat]
biodb.INFO [2025-08-08 13:41:07.663][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-08-08 13:41:07.664][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-08 13:41:07.665][biodb::testThat]
biodb.DEBUG[2025-08-08 13:41:07.667][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-08 13:41:07.668][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-08-08 13:41:07.669][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-08-08 13:41:07.672][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:07.674][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:07.675][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:07.676][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:07.677][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:07.679][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:07.680][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:07.681][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:07.682][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:07.682][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 13:41:07.683][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-08-08 13:41:07.685][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-08-08 13:41:07.686][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 13:41:07.688][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:07.689][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 13:41:07.692][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-08-08 13:41:07.693][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-08 13:41:07.695][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-08-08 13:41:07.697][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 13:41:07.698][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 13:41:07.699][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 13:41:07.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:07.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:07.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:07.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:07.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:07.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:07.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 13:41:07.716][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:07.717][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:07.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:07.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:07.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.724][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:07.725][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:07.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.727][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:07.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:07.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.731][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.732][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.735][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.738][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.739][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.741][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.742][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.761][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.762][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.768][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:07.769][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:07.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.772][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:07.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:07.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.775][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:07.776][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:07.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.778][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.779][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:07.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:07.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.783][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.785][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.788][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.792][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.793][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.795][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.796][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.799][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:07.800][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:07.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.802][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.803][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:07.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:07.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.806][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:07.807][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:07.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:07.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:07.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.814][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:07.815][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:07.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.816][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:07.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:07.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.821][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:07.822][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:07.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.823][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:07.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:07.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.828][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:07.829][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:07.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.833][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:07.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:07.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.837][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:07.838][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:07.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.839][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.841][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:07.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:07.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.862][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:07.863][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:07.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.867][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:07.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:07.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.871][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:07.872][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:07.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.875][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:07.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:07.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:07.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:07.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:07.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:07.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:07.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:07.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.889][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.893][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.896][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:07.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.900][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.903][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.906][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:07.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:07.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:07.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.930][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.934][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:07.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.940][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.944][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.947][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:07.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.958][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:07.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:07.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.964][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:07.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:07.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.968][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:07.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:07.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.972][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:07.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:07.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.975][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:07.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:07.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.978][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:07.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:07.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:07.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:07.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.985][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:07.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:07.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.988][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:07.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:07.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:07.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:07.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:07.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:07.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:07.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:07.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:08.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:08.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.003][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.017][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.021][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.025][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.051][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.054][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.065][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.071][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.075][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.079][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:08.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.086][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:08.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:08.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:08.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:08.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.093][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:08.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.107][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:08.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.122][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.125][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.129][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.132][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.140][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:08.177][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-08 13:41:08.178][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.182][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.188][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.192][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:08.195][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 13:41:08.196][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 13:41:08.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:08.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:08.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:08.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:08.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:08.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:08.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:08.209][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-08-08 13:41:08.210][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-08 13:41:08.212][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:08.213][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-08 13:41:08.215][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-08-08 13:41:08.217][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-08 13:41:08.218][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-08 13:41:08.219][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-08 13:41:08.221][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-08 13:41:08.222][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-08 13:41:08.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:08.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:08.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:08.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:08.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:08.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:08.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 13:41:08.238][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.240][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.246][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.247][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.249][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.250][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.254][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.255][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.258][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.262][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.263][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.265][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.266][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.273][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.277][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.285][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.289][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.296][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.297][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.298][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.300][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.304][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.305][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.306][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.308][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.312][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.313][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.315][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.316][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.321][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.322][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.323][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.324][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.328][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:08.329][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:08.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.331][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:08.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:08.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.337][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:08.338][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:08.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.339][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:08.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:08.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.344][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.345][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.347][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.353][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.356][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.362][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.364][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.365][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.372][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.373][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.377][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.380][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:08.382][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:08.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:08.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:08.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.390][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:08.392][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:08.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.396][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-08 13:41:08.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:08.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.429][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.434][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.439][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-08 13:41:08.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.444][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.449][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.453][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-08 13:41:08.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-08 13:41:08.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-08 13:41:08.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.479][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.482][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.486][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-08 13:41:08.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.489][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.493][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.496][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-08 13:41:08.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.500][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:08.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:08.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.503][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:08.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:08.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.507][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:08.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-08 13:41:08.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.511][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.523][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.528][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:08.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:08.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.536][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:08.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:08.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.539][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-08 13:41:08.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-08 13:41:08.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:08.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:08.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:08.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:08.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.550][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-08 13:41:08.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-08 13:41:08.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.564][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.568][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.571][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-08 13:41:08.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-08 13:41:08.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.593][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.596][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.600][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.603][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-08 13:41:08.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.606][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.610][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.613][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-08 13:41:08.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.626][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:08.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:08.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:08.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:08.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.634][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-08 13:41:08.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-08 13:41:08.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.637][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:08.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.651][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-08 13:41:08.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-08 13:41:08.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.655][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.666][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.669][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-08 13:41:08.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-08 13:41:08.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.672][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.676][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.683][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-08 13:41:08.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-08 13:41:08.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-08 13:41:08.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:08.707][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-08-08 13:41:08.708][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.719][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.726][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.730][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:08.734][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 13:41:08.735][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:08.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:08.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:08.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:08.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:08.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:08.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:08.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:08.767][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-08 13:41:08.768][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-08-08 13:41:08.769][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-08-08 13:41:08.771][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:08.772][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:08.774][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:08.775][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:08.776][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:08.777][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:08.778][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:08.779][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:08.780][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:08.781][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 13:41:08.782][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 13:41:08.783][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.787][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.794][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.797][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.800][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.804][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:08.807][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 13:41:08.808][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 13:41:08.809][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:08.810][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:08.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:08.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:08.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:08.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:08.819][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.TRACE[2025-08-08 13:41:08.820][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.839][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.843][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.847][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.851][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.854][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.857][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:08.861][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-08-08 13:41:08.862][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 13:41:08.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:08.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:08.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:08.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:08.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:08.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:08.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-08 13:41:08.877][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-08 13:41:08.879][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-08-08 13:41:08.879][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-08-08 13:41:08.881][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:08.882][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:08.884][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-08 13:41:08.885][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-08 13:41:08.886][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-08 13:41:08.887][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-08 13:41:08.888][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-08 13:41:08.889][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-08 13:41:08.890][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-08 13:41:08.891][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-08 13:41:08.891][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-08 13:41:08.893][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.897][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.903][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.907][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.910][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.913][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:08.917][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-08-08 13:41:08.918][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-08-08 13:41:08.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:08.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:08.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:08.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:08.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:08.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:08.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-08 13:41:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.940][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.946][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.950][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.953][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.957][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-08 13:41:08.960][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-08 13:41:08.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-08 13:41:08.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-08 13:41:08.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-08 13:41:08.963][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-08 13:41:08.964][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-08 13:41:08.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-08 13:41:08.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:08.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:08.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:08.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:08.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:08.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-08 13:41:08.983][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-08 13:41:08.984][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-08 13:41:08.986][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-08 13:41:08.986][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-08 13:41:08.987][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-08 13:41:08.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-08 13:41:08.989][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-08 13:41:08.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-08 13:41:08.990][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-08 13:41:08.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  9.264   0.604  11.926

CHECK results for biodbHmdb on kjohnson1

Summary

Command output

Installation output

Tests output

Example timings