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 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4824
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4604
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4545
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: 2025-08-26 14:07:26 -0400 (Tue, 26 Aug 2025)

EndedAt: 2025-08-26 14:08:21 -0400 (Tue, 26 Aug 2025)

EllapsedTime: 55.7 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 [2025-08-26 14:08:00.239][biodb::testContext]
biodb.INFO [2025-08-26 14:08:00.243][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 14:08:00.244][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-08-26 14:08:00.245][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 14:08:00.246][biodb::testContext]
biodb.INFO [2025-08-26 14:08:00.249][biodb::testThat]
biodb.INFO [2025-08-26 14:08:00.250][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-08-26 14:08:00.252][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:00.253][biodb::testThat]
biodb.INFO [2025-08-26 14:08:00.377][biodb::testContext]
biodb.INFO [2025-08-26 14:08:00.378][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 14:08:00.379][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-26 14:08:00.380][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 14:08:00.381][biodb::testContext]
biodb.INFO [2025-08-26 14:08:00.392][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-26 14:08:00.395][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 14:08:00.403][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:00.405][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 14:08:00.406][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 14:08:00.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.409][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 14:08:00.437][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 14:08:00.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.441][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 14:08:00.442][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 14:08:00.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.446][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 14:08:00.446][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 14:08:00.447][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 14:08:00.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.450][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[2025-08-26 14:08:00.450][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 14:08:00.451][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 14:08:00.452][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 14:08:00.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.455][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 14:08:00.456][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 14:08:00.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.459][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 14:08:00.460][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 14:08:00.461][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 14:08:00.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.465][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 14:08:00.467][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 14:08:00.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.471][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 14:08:00.472][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 14:08:00.473][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 14:08:00.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.476][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 14:08:00.477][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 14:08:00.478][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 14:08:00.479][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 14:08:00.480][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 14:08:00.481][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 14:08:00.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.484][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 14:08:00.485][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 14:08:00.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.489][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 14:08:00.490][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 14:08:00.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.495][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 14:08:00.496][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 14:08:00.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.500][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 14:08:00.501][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-26 14:08:00.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.505][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 14:08:00.505][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 14:08:00.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.508][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 14:08:00.509][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 14:08:00.528][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 14:08:00.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.532][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 14:08:00.533][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 14:08:00.534][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 14:08:00.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.540][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 14:08:00.575][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.593][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 14:08:00.594][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.595][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:00.596][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.597][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.598][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.599][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.600][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 14:08:00.600][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:00.601][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.602][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 14:08:00.603][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:00.604][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.604][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.605][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:00.605][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 14:08:00.605][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 14:08:00.605][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 14:08:00.605][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 14:08:00.606][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:00.607][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:00.608][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:00.608][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:00.616][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:00.617][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:00.618][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.619][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.620][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:00.622][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:00.623][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.624][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.625][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 14:08:00.627][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.628][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 14:08:00.629][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.630][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:00.631][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.632][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.633][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.633][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.634][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 14:08:00.635][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:00.636][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.637][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 14:08:00.638][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:00.639][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.640][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.641][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:00.641][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 14:08:00.641][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 14:08:00.641][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 14:08:00.641][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 14:08:00.642][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:00.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:00.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:00.645][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:00.646][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:00.647][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:00.647][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.648][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.649][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:00.650][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:00.651][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.652][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.653][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 14:08:00.655][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.656][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 14:08:00.657][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.658][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:00.660][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.661][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.662][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.667][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.668][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 14:08:00.669][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:00.670][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.671][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 14:08:00.672][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:00.673][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.674][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.675][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.677][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:00.678][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:00.679][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:00.680][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:00.682][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:00.683][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:00.685][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.686][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.688][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:00.688][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:00.689][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.690][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.691][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 14:08:00.693][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.694][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 14:08:00.695][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.696][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:00.696][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.697][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.698][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.699][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.700][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 14:08:00.701][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:00.701][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.702][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 14:08:00.703][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:00.704][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.705][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:00.705][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.706][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:00.707][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:00.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:00.709][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:00.710][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:00.710][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:00.711][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:00.712][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.713][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:00.713][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:00.714][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:00.715][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:00.720][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:00.721][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.796][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 14:08:00.802][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 14:08:00.804][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 14:08:00.805][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 14:08:00.807][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 14:08:00.808][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 14:08:00.810][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 14:08:00.811][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 14:08:00.812][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 14:08:00.813][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 14:08:00.816][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 14:08:00.817][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 14:08:00.819][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 14:08:00.821][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 14:08:00.822][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 14:08:00.824][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 14:08:00.825][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 14:08:00.826][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 14:08:00.828][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 14:08:00.829][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 14:08:00.831][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 14:08:00.833][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 14:08:00.834][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 14:08:00.836][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 14:08:00.837][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 14:08:00.838][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 14:08:00.839][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 14:08:00.840][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 14:08:00.842][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 14:08:00.843][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 14:08:00.844][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 14:08:00.845][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 14:08:00.847][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 14:08:00.848][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 14:08:00.849][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 14:08:00.850][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 14:08:00.851][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 14:08:00.853][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 14:08:00.854][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 14:08:00.855][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 14:08:00.856][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 14:08:00.857][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 14:08:00.859][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 14:08:00.860][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 14:08:00.861][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 14:08:00.862][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 14:08:00.863][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 14:08:00.864][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 14:08:00.866][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 14:08:00.867][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 14:08:00.868][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 14:08:00.869][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 14:08:00.870][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 14:08:00.871][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 14:08:00.873][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 14:08:00.874][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 14:08:00.875][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 14:08:00.876][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 14:08:00.877][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 14:08:00.879][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 14:08:00.880][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 14:08:00.881][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 14:08:00.882][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 14:08:00.883][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 14:08:00.884][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 14:08:00.885][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 14:08:00.887][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 14:08:00.888][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 14:08:00.889][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 14:08:00.890][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 14:08:00.891][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 14:08:00.892][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 14:08:00.894][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 14:08:00.895][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 14:08:00.896][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 14:08:00.897][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 14:08:00.898][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 14:08:00.899][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 14:08:00.901][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 14:08:00.902][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 14:08:00.903][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 14:08:00.904][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 14:08:00.905][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 14:08:00.911][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 14:08:00.913][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-26 14:08:00.917][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:00.918][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.920][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:00.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:00.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:00.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:00.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:00.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:00.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:00.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:00.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.946][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[2025-08-26 14:08:00.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:00.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:00.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:00.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:00.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:00.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:00.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:00.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:00.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.047][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[2025-08-26 14:08:01.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:01.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:01.068][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-26 14:08:01.078][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:01.081][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:01.082][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-26 14:08:01.083][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:01.083][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:01.084][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:01.085][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-26 14:08:01.086][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:01.087][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:01.088][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-26 14:08:01.089][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:01.089][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:01.090][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-26 14:08:01.091][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-26 14:08:01.092][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-26 14:08:01.093][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:01.094][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:01.094][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-26 14:08:01.094][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-26 14:08:01.095][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-26 14:08:01.096][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:01.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:01.098][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:01.100][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:01.100][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:01.102][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:01.103][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-26 14:08:01.103][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-26 14:08:01.104][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:01.105][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:01.106][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:01.107][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:01.115][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-26 14:08:01.117][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 14:08:01.118][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 14:08:01.120][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 14:08:01.122][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 14:08:01.155][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:01.157][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-26 14:08:01.162][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:01.167][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-26 14:08:01.172][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:01.173][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:01.174][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-26 14:08:01.175][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-26 14:08:01.176][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-26 14:08:01.176][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-26 14:08:01.177][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:01.178][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:01.179][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-26 14:08:01.179][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-26 14:08:01.180][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:01.209][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-26 14:08:01.211][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:01.212][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:01.213][private$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[2025-08-26 14:08:01.215][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:01.215][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-26 14:08:01.226][biodb::testThat]
biodb.INFO [2025-08-26 14:08:01.227][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-26 14:08:01.228][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:01.229][biodb::testThat]
biodb.TRACE[2025-08-26 14:08:01.234][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[2025-08-26 14:08:01.237][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-26 14:08:01.241][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-26 14:08:01.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:01.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:01.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:01.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:01.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:01.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:01.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:01.277][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.279][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.300][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.301][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.303][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.335][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.339][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.340][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.342][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.343][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.347][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.348][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.350][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.351][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.355][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.357][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.362][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.363][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.364][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.384][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.385][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.388][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.392][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.393][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.395][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.396][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.399][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.400][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.403][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.406][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.407][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.409][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.410][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.413][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:01.414][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:01.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.417][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:01.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:01.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.422][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:01.423][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:01.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:01.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:01.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.430][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.432][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.434][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.439][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.440][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.442][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.447][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.448][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.449][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.454][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:01.454][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:01.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.456][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.457][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:01.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:01.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.461][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:01.461][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:01.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.464][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:01.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:01.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.470][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:01.471][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:01.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.474][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:01.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:01.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.529][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.534][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.537][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:01.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.543][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.547][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.551][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:01.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:01.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:01.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.579][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.582][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.586][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:01.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.589][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.592][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.597][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:01.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.602][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:01.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:01.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.605][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:01.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:01.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.609][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:01.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:01.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.612][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:01.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:01.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.615][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:01.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:01.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.619][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:01.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:01.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.623][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:01.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:01.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.626][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:01.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:01.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:01.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:01.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:01.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:01.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:01.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:01.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:01.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:01.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.645][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.661][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.664][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.667][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:01.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:01.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.698][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.702][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.706][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:01.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.709][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.712][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.715][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.716][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:01.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:01.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.719][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:01.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:01.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.724][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:01.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:01.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.729][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:01.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.743][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:01.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:01.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.769][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.779][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:01.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:01.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.786][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.796][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.802][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:01.829][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-26 14:08:01.833][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 14:08:01.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 14:08:01.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.837][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 14:08:01.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 14:08:01.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.840][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 14:08:01.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 14:08:01.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.844][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 14:08:01.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 14:08:01.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.879][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.914][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.917][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.920][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:01.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.946][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.947][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.959][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:01.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:01.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.973][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.977][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.981][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.984][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.985][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:01.987][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:01.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:01.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.017][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.018][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.020][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.033][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.039][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.043][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.047][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.048][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.051][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.077][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.078][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.093][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.097][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.103][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.107][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.107][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.109][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.110][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:02.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:02.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:02.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:02.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:02.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:02.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.142][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:02.143][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:02.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:02.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:02.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.158][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.163][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.167][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.173][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.174][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.178][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:02.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:02.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.195][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:02.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:02.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.199][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:02.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:02.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.202][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:02.203][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:02.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.207][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:02.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:02.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.223][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.227][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.231][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.235][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.236][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.237][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.238][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.264][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.265][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.287][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.291][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.295][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.298][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.300][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.302][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.302][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.315][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.320][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.323][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.326][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.327][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.330][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.342][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.346][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.349][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.354][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.355][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.358][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.359][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.371][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:02.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:02.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.374][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:02.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:02.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.378][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:02.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:02.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:02.384][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:02.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.387][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:02.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:02.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:02.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:02.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:02.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:02.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:02.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:02.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.410][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:02.411][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:02.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:02.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:02.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.444][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.445][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.447][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.462][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.466][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.470][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.474][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.474][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.477][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.493][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:02.494][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:02.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.496][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.501][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.502][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.504][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.508][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.509][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.511][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.516][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.517][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.519][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.523][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.524][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.533][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.535][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.536][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.542][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.543][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.545][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.551][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.552][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.555][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.559][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.561][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.562][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.567][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:02.568][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:02.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.570][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.574][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:02.575][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:02.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.590][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.592][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.601][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.607][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.609][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.617][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:02.618][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:02.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.620][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.625][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.626][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.628][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.633][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:02.634][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:02.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.636][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.641][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:02.642][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:02.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.644][ef$get] fields variable is a list.
biodb.INFO [2025-08-26 14:08:02.653][biodb::testThat]
biodb.INFO [2025-08-26 14:08:02.654][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-26 14:08:02.655][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:02.655][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:02.671][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-08-26 14:08:02.680][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 14:08:02.687][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:02.689][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-26 14:08:02.692][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-08-26 14:08:02.693][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-26 14:08:02.695][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-08-26 14:08:02.697][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 14:08:02.723][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-26 14:08:02.724][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-26 14:08:02.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:02.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:02.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:02.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:02.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:02.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:02.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:02.740][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:02.741][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:02.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.742][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:02.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:02.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.760][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:02.761][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:02.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.765][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:02.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:02.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.769][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.770][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.772][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.773][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.777][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.778][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.781][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.784][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.787][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.793][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.795][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.797][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.802][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.803][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.806][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:02.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.810][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.811][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.812][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.813][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:02.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.817][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.818][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.819][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.820][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.824][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.825][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.826][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.828][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.831][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:02.832][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:02.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.833][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.834][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:02.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:02.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.838][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:02.839][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:02.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.840][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:02.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:02.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.845][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.846][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.848][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:02.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.855][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.856][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.858][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:02.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.863][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:02.864][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:02.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.865][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:02.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:02.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.870][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.871][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.873][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.874][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.878][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:02.879][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:02.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.881][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:02.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:02.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.897][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:02.899][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.901][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.903][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:02.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:02.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:02.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:02.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:02.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:02.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:02.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.918][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.921][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.925][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:02.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.930][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.935][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.939][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:02.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:02.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:02.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.965][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.970][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:02.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.975][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.979][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.982][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:02.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.985][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.989][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.992][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:02.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.995][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:02.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:02.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:02.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:02.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.002][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:03.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:03.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:03.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:03.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.015][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:03.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:03.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:03.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:03.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:03.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:03.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:03.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:03.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.046][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.049][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:03.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:03.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.052][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:03.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:03.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.056][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:03.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:03.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:03.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:03.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:03.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:03.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:03.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:03.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.072][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.080][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.083][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:03.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:03.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.088][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:03.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:03.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.091][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:03.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:03.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.095][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.098][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.101][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.105][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:03.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:03.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.108][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:03.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:03.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.112][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:03.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:03.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.116][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:03.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.134][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:03.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:03.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.156][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:03.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:03.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.166][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:03.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:03.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:03.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:03.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.172][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:03.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:03.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:03.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:03.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:03.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:03.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:03.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:03.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:03.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:03.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:03.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:03.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:03.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:03.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.195][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-26 14:08:03.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-26 14:08:03.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-26 14:08:03.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-26 14:08:03.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-26 14:08:03.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-26 14:08:03.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-26 14:08:03.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 14:08:03.219][biodb::testThat]
biodb.INFO [2025-08-26 14:08:03.220][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-26 14:08:03.221][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:03.222][biodb::testThat]
biodb.TRACE[2025-08-26 14:08:03.226][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.227][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.229][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.231][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-08-26 14:08:03.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.276][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-08-26 14:08:03.277][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-08-26 14:08:03.278][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-26 14:08:03.279][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-26 14:08:03.282][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.283][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.285][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:03.287][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.288][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:03.289][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:03.290][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:03.291][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:03.292][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:03.293][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-26 14:08:03.294][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-26 14:08:03.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.313][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.316][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-26 14:08:03.317][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-26 14:08:03.318][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-08-26 14:08:03.331][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.332][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.334][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.335][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-08-26 14:08:03.349][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.353][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.356][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.363][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[2025-08-26 14:08:03.421][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-26 14:08:03.423][private$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[2025-08-26 14:08:03.424][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-08-26 14:08:03.446][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.449][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.451][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:03.453][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.455][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:03.472][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:03.473][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:03.474][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:03.475][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:03.476][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-26 14:08:03.477][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-26 14:08:03.479][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.483][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.486][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.490][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:03.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:03.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.493][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-26 14:08:03.494][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-26 14:08:03.495][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-08-26 14:08:03.508][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.510][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.512][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.513][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-08-26 14:08:03.526][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.530][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.534][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.540][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-08-26 14:08:03.541][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-08-26 14:08:03.542][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-08-26 14:08:03.543][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-08-26 14:08:03.545][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.546][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.547][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:03.548][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.549][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:03.550][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:03.552][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:03.552][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:03.553][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:03.554][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-26 14:08:03.555][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-26 14:08:03.557][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.560][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.564][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.567][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:03.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.570][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-26 14:08:03.571][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-26 14:08:03.572][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-08-26 14:08:03.594][biodb::testThat]
biodb.INFO [2025-08-26 14:08:03.596][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-26 14:08:03.597][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:03.597][biodb::testThat]
biodb.TRACE[2025-08-26 14:08:03.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.633][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-08-26 14:08:03.634][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-26 14:08:03.635][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-08-26 14:08:03.637][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.638][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.640][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:03.641][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:03.642][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:03.643][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:03.644][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:03.645][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:03.646][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:03.647][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-26 14:08:03.648][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-26 14:08:03.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:03.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:03.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:03.664][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-26 14:08:03.664][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-08-26 14:08:03.681][biodb::testThat]
biodb.INFO [2025-08-26 14:08:03.683][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-26 14:08:03.684][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:03.684][biodb::testThat]
biodb.TRACE[2025-08-26 14:08:03.708][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 14:08:03.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 14:08:03.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.712][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 14:08:03.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 14:08:03.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.716][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 14:08:03.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 14:08:03.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.719][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 14:08:03.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 14:08:03.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.772][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 14:08:03.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 14:08:03.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.777][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-26 14:08:03.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-26 14:08:03.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.780][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-26 14:08:03.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-26 14:08:03.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:03.784][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-26 14:08:03.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-26 14:08:03.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:03.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 14:08:03.795][biodb::testThat]
biodb.INFO [2025-08-26 14:08:03.796][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-26 14:08:03.797][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:03.798][biodb::testThat]
biodb.INFO [2025-08-26 14:08:03.806][biodb::testThat]
biodb.INFO [2025-08-26 14:08:03.808][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-26 14:08:03.808][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:03.809][biodb::testThat]
biodb.INFO [2025-08-26 14:08:03.818][biodb::testThat]
biodb.INFO [2025-08-26 14:08:03.819][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-26 14:08:03.820][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:03.821][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:03.825][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-08-26 14:08:09.285][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-08-26 14:08:09.481][biodb::testThat]
biodb.INFO [2025-08-26 14:08:09.482][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-26 14:08:09.483][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:09.484][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:11.136][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-08-26 14:08:11.333][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:11.335][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:11.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.338][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:11.339][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:11.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.341][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.342][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:11.343][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:11.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.344][ef$get] fields variable is a list.
biodb.INFO [2025-08-26 14:08:11.346][biodb::testThat]
biodb.INFO [2025-08-26 14:08:11.347][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-26 14:08:11.348][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:11.348][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:11.363][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-26 14:08:11.414][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 14:08:11.417][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.418][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-26 14:08:11.434][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-08-26 14:08:11.436][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-26 14:08:11.437][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-26 14:08:11.438][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 14:08:11.439][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.440][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-26 14:08:11.442][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-26 14:08:11.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:11.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:11.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:11.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:11.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:11.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:11.458][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:11.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:11.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.505][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:11.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:11.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:11.531][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-26 14:08:11.532][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-26 14:08:11.550][biodb::testThat]
biodb.INFO [2025-08-26 14:08:11.552][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-26 14:08:11.554][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:11.555][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:11.565][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-08-26 14:08:11.566][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-08-26 14:08:11.567][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 14:08:11.569][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.570][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-26 14:08:11.572][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-08-26 14:08:11.574][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-08-26 14:08:11.575][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-08-26 14:08:11.576][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 14:08:11.577][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.578][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-26 14:08:11.579][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-26 14:08:11.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:11.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:11.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:11.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:11.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:11.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:11.594][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:11.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:11.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.598][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:11.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:11.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:11.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:11.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:11.630][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-08-26 14:08:11.631][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-26 14:08:11.632][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-08-26 14:08:11.645][biodb::testThat]
biodb.INFO [2025-08-26 14:08:11.647][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-26 14:08:11.647][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:11.648][biodb::testThat]
biodb.INFO [2025-08-26 14:08:11.672][biodb::testThat]
biodb.INFO [2025-08-26 14:08:11.673][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-26 14:08:11.674][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:11.674][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:11.677][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.678][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.679][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:11.681][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.681][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:11.683][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:11.684][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:11.685][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:11.685][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-08-26 14:08:11.694][biodb::testThat]
biodb.INFO [2025-08-26 14:08:11.695][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-26 14:08:11.696][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:11.696][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:11.699][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.700][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.701][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:11.703][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:11.704][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:11.705][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:11.706][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:11.707][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:11.708][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-08-26 14:08:11.718][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:11.720][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:11.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.723][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:11.724][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:11.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.726][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:11.726][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:11.727][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:11.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:11.729][ef$get] fields variable is a list.
biodb.INFO [2025-08-26 14:08:11.730][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 14:08:11.731][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-26 14:08:11.747][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-26 14:08:11.749][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 14:08:11.750][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:11.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:11.752][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:11.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:11.755][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 14:08:11.760][biodb::testContext]
biodb.INFO [2025-08-26 14:08:11.762][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 14:08:11.763][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-08-26 14:08:11.763][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 14:08:11.764][biodb::testContext]
biodb.INFO [2025-08-26 14:08:11.769][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-26 14:08:11.771][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 14:08:11.776][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:11.777][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 14:08:11.778][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 14:08:11.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.782][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 14:08:11.783][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 14:08:11.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.786][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 14:08:11.787][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 14:08:11.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.790][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 14:08:11.790][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 14:08:11.791][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 14:08:11.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.794][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 14:08:11.795][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 14:08:11.799][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 14:08:11.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.803][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 14:08:11.804][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 14:08:11.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.808][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 14:08:11.809][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 14:08:11.810][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 14:08:11.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.813][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 14:08:11.814][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 14:08:11.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.818][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 14:08:11.821][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 14:08:11.822][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 14:08:11.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.826][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 14:08:11.827][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 14:08:11.828][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 14:08:11.830][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 14:08:11.831][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 14:08:11.832][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 14:08:11.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.835][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 14:08:11.836][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 14:08:11.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.839][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 14:08:11.840][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 14:08:11.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.843][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 14:08:11.844][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 14:08:11.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.847][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 14:08:11.848][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-26 14:08:11.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.851][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 14:08:11.852][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 14:08:11.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.862][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 14:08:11.864][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 14:08:11.885][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 14:08:11.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.890][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[2025-08-26 14:08:11.891][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 14:08:11.892][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 14:08:11.893][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 14:08:11.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:11.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:11.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:11.896][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 14:08:11.898][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.899][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-26 14:08:11.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.901][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:11.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.905][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.907][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.908][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 14:08:11.909][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:11.910][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.911][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 14:08:11.912][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:11.913][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.914][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.915][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:11.915][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 14:08:11.915][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 14:08:11.915][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 14:08:11.915][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 14:08:11.916][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:11.916][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:11.917][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:11.918][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:11.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:11.920][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:11.920][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.921][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.922][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:11.923][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:11.924][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.924][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.925][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 14:08:11.928][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.929][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 14:08:11.930][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.931][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:11.932][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.933][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.934][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.934][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.935][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 14:08:11.936][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:11.937][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.938][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 14:08:11.939][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:11.940][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.941][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.942][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:11.942][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 14:08:11.942][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 14:08:11.942][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 14:08:11.942][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 14:08:11.943][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:11.944][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:11.944][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:11.945][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:11.946][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:11.947][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:11.948][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.948][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.950][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:11.951][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:11.953][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.954][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.956][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 14:08:11.958][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.959][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-26 14:08:11.959][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.960][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:11.961][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.962][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.963][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.964][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.965][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 14:08:11.965][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:11.966][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.967][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 14:08:11.968][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:11.969][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.970][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.971][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.971][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:11.972][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:11.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:11.974][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:11.975][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:11.976][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:11.976][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.977][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.978][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:11.979][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:11.980][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.980][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:11.981][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 14:08:11.990][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.991][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 14:08:11.992][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.993][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:11.994][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:11.995][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.996][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:11.997][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:11.997][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 14:08:11.998][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:11.999][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:12.000][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 14:08:12.001][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:12.002][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:12.002][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:12.003][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:12.004][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:12.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:12.006][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:12.007][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:12.008][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:12.009][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:12.009][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:12.010][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:12.011][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:12.012][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:12.013][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:12.014][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:12.015][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:12.016][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.017][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.DEBUG[2025-08-26 14:08:12.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.061][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[2025-08-26 14:08:12.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.073][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[2025-08-26 14:08:12.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.083][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[2025-08-26 14:08:12.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.089][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 14:08:12.090][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 14:08:12.091][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 14:08:12.092][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 14:08:12.093][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 14:08:12.095][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 14:08:12.096][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 14:08:12.097][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 14:08:12.098][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 14:08:12.099][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 14:08:12.100][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 14:08:12.102][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 14:08:12.103][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 14:08:12.104][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 14:08:12.105][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 14:08:12.106][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 14:08:12.108][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 14:08:12.109][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 14:08:12.110][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 14:08:12.111][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 14:08:12.112][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 14:08:12.113][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 14:08:12.115][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 14:08:12.116][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 14:08:12.117][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 14:08:12.118][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 14:08:12.119][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 14:08:12.121][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 14:08:12.122][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 14:08:12.123][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 14:08:12.124][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 14:08:12.127][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 14:08:12.129][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 14:08:12.130][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 14:08:12.132][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 14:08:12.133][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 14:08:12.135][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 14:08:12.136][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 14:08:12.137][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 14:08:12.138][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 14:08:12.140][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 14:08:12.141][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 14:08:12.142][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 14:08:12.143][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 14:08:12.145][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 14:08:12.146][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 14:08:12.147][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 14:08:12.148][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 14:08:12.149][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 14:08:12.151][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 14:08:12.153][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 14:08:12.155][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 14:08:12.157][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 14:08:12.158][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 14:08:12.159][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 14:08:12.161][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 14:08:12.162][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 14:08:12.163][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 14:08:12.164][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 14:08:12.166][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 14:08:12.167][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 14:08:12.168][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 14:08:12.169][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 14:08:12.170][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 14:08:12.171][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 14:08:12.173][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 14:08:12.174][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 14:08:12.175][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 14:08:12.183][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 14:08:12.185][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 14:08:12.186][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 14:08:12.187][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 14:08:12.189][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 14:08:12.190][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 14:08:12.191][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 14:08:12.192][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 14:08:12.193][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 14:08:12.194][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 14:08:12.196][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 14:08:12.197][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 14:08:12.198][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 14:08:12.199][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 14:08:12.200][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 14:08:12.201][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 14:08:12.203][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-26 14:08:12.204][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:12.205][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.207][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.208][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[2025-08-26 14:08:12.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.273][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[2025-08-26 14:08:12.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.289][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[2025-08-26 14:08:12.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.315][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[2025-08-26 14:08:12.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.322][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-26 14:08:12.324][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:12.326][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:12.327][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-26 14:08:12.328][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:12.329][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:12.330][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:12.330][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-26 14:08:12.331][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:12.332][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:12.333][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-26 14:08:12.334][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:12.335][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:12.335][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-26 14:08:12.336][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-26 14:08:12.337][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-26 14:08:12.338][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:12.339][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:12.339][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-26 14:08:12.339][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-26 14:08:12.340][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-26 14:08:12.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:12.342][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:12.343][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:12.344][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:12.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:12.348][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:12.349][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-26 14:08:12.349][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-26 14:08:12.350][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:12.351][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:12.352][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:12.353][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:12.354][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-26 14:08:12.356][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 14:08:12.358][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 14:08:12.361][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 14:08:12.363][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 14:08:12.366][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:12.367][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-26 14:08:12.369][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:12.372][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-26 14:08:12.374][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:12.375][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:12.376][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-26 14:08:12.377][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-26 14:08:12.378][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-26 14:08:12.378][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-26 14:08:12.379][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:12.380][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:12.382][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-26 14:08:12.383][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-26 14:08:12.384][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:12.386][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-26 14:08:12.387][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:12.388][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:12.389][private$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[2025-08-26 14:08:12.390][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:12.391][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-26 14:08:12.393][biodb::testThat]
biodb.INFO [2025-08-26 14:08:12.394][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-08-26 14:08:12.394][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:12.395][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:12.407][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:12.409][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:12.410][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:12.411][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:12.412][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:12.413][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:12.414][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:12.415][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:12.416][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:12.419][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-08-26 14:08:12.426][biodb::testThat]
biodb.INFO [2025-08-26 14:08:12.427][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-08-26 14:08:12.428][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:12.429][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:12.431][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-08-26 14:08:12.432][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 14:08:12.434][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:12.435][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-26 14:08:12.437][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-08-26 14:08:12.438][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-26 14:08:12.441][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-26 14:08:12.443][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 14:08:12.444][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-26 14:08:12.445][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-26 14:08:12.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:12.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:12.460][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.463][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.467][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.468][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.470][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.471][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.475][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.476][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.479][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.483][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.484][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.486][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.492][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.497][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.498][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.499][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.506][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.507][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.509][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.510][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.521][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.522][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.524][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.526][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.529][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.530][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.532][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.533][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.538][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.539][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.541][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.542][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.546][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:12.547][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:12.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.548][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.550][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:12.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:12.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.553][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:12.554][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:12.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.559][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:12.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:12.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.566][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.567][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.568][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.574][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.576][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.580][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.581][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.583][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.584][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.587][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:12.588][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:12.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.590][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:12.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:12.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.594][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:12.595][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:12.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.597][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.598][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:12.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:12.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.602][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:12.602][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:12.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.604][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.605][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:12.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:12.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.631][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.637][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.642][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:12.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.646][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.649][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.653][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:12.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:12.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:12.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.681][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.684][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:12.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.688][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.691][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.694][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:12.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.703][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:12.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:12.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.709][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:12.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:12.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.713][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:12.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:12.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.716][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:12.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:12.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.720][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:12.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:12.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.723][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:12.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:12.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.727][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:12.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:12.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.730][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:12.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:12.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.741][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:12.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:12.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:12.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:12.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:12.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:12.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:12.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:12.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.766][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.769][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.773][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:12.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:12.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.787][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.802][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.805][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.809][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:12.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.813][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.816][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.820][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:12.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.823][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:12.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:12.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.826][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:12.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:12.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.830][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:12.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:12.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.840][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:12.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.854][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:12.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:12.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.859][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.870][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.873][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:12.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:12.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.876][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:12.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:12.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.880][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:12.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:12.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.887][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:12.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:12.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:12.909][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-08-26 14:08:12.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:12.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:12.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:12.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:12.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-26 14:08:12.927][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 14:08:12.929][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-26 14:08:12.936][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-26 14:08:12.938][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 14:08:12.940][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:12.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:12.943][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:12.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:12.945][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 14:08:12.950][biodb::testContext]
biodb.INFO [2025-08-26 14:08:12.951][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 14:08:12.952][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-08-26 14:08:12.952][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-26 14:08:12.953][biodb::testContext]
biodb.INFO [2025-08-26 14:08:12.959][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-26 14:08:12.961][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-08-26 14:08:12.967][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:12.968][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-26 14:08:12.969][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-26 14:08:12.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.972][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-26 14:08:12.973][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-26 14:08:12.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.976][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-26 14:08:12.977][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-26 14:08:12.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.980][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-26 14:08:12.981][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-26 14:08:12.982][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-26 14:08:12.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.985][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-26 14:08:12.986][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-26 14:08:12.987][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-26 14:08:12.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.990][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-26 14:08:12.991][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-26 14:08:12.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.994][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-26 14:08:12.994][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-26 14:08:12.995][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-26 14:08:12.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:12.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:12.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:12.998][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-26 14:08:12.999][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-26 14:08:13.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.002][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-26 14:08:13.003][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-26 14:08:13.004][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-26 14:08:13.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.007][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-26 14:08:13.008][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-26 14:08:13.008][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-26 14:08:13.009][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-26 14:08:13.010][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-26 14:08:13.011][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-26 14:08:13.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.014][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-26 14:08:13.015][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-26 14:08:13.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.017][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.DEBUG[2025-08-26 14:08:13.018][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-26 14:08:13.018][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-26 14:08:13.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.022][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-26 14:08:13.024][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-26 14:08:13.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.028][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-26 14:08:13.029][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-26 14:08:13.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.032][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-26 14:08:13.033][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-26 14:08:13.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.036][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-26 14:08:13.045][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-26 14:08:13.067][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-26 14:08:13.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.072][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-26 14:08:13.073][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-26 14:08:13.074][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-26 14:08:13.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.077][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-26 14:08:13.079][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.080][self$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[2025-08-26 14:08:13.081][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.081][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:13.082][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.083][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.084][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.085][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.085][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 14:08:13.086][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:13.089][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.090][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-26 14:08:13.091][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:13.093][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.094][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.095][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:13.095][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 14:08:13.095][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 14:08:13.095][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 14:08:13.095][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 14:08:13.096][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:13.097][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.097][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.098][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:13.099][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.100][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.101][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.102][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.103][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:13.103][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:13.104][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.105][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.106][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-26 14:08:13.108][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.109][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 14:08:13.110][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.111][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:13.112][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.113][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.113][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.114][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.115][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 14:08:13.116][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:13.117][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.118][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-26 14:08:13.119][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:13.119][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.120][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.121][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:13.121][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-26 14:08:13.121][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-26 14:08:13.121][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-26 14:08:13.121][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-26 14:08:13.122][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:13.123][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.124][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.124][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:13.125][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.126][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.127][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.128][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.128][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:13.129][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:13.130][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.131][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.132][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-26 14:08:13.133][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.134][self$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[2025-08-26 14:08:13.135][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.136][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:13.137][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.138][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.139][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.139][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.140][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-26 14:08:13.141][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:13.142][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.143][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-26 14:08:13.144][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:13.144][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.145][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.146][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.148][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:13.149][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.151][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.152][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:13.153][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.154][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.154][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.155][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.156][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:13.157][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:13.158][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.159][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.160][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-26 14:08:13.168][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.170][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-26 14:08:13.170][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.171][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:13.172][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.173][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.174][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.175][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.176][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-26 14:08:13.178][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:13.179][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.180][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-26 14:08:13.181][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:13.182][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.183][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.184][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.185][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-26 14:08:13.186][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.186][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.187][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:13.188][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.189][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.190][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.191][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.191][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:13.192][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:13.193][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.194][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.195][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:13.196][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.208][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[2025-08-26 14:08:13.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.268][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-26 14:08:13.270][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-26 14:08:13.272][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-26 14:08:13.273][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-26 14:08:13.275][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-26 14:08:13.276][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 14:08:13.277][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-26 14:08:13.278][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-26 14:08:13.280][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-26 14:08:13.281][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 14:08:13.282][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 14:08:13.286][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-26 14:08:13.287][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-26 14:08:13.289][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-26 14:08:13.292][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-26 14:08:13.293][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 14:08:13.295][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-26 14:08:13.296][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-26 14:08:13.297][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-26 14:08:13.299][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-26 14:08:13.300][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-26 14:08:13.301][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-26 14:08:13.303][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-26 14:08:13.304][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-26 14:08:13.305][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-26 14:08:13.306][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-26 14:08:13.307][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-26 14:08:13.309][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-26 14:08:13.310][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-26 14:08:13.311][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-26 14:08:13.313][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-26 14:08:13.314][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-26 14:08:13.317][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-26 14:08:13.319][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-26 14:08:13.320][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-26 14:08:13.322][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-26 14:08:13.324][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-26 14:08:13.325][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-26 14:08:13.326][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-26 14:08:13.327][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-26 14:08:13.329][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-26 14:08:13.330][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-26 14:08:13.331][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-26 14:08:13.332][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-26 14:08:13.334][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-26 14:08:13.335][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-26 14:08:13.336][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-26 14:08:13.337][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-26 14:08:13.338][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-26 14:08:13.340][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-26 14:08:13.341][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-26 14:08:13.342][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-26 14:08:13.343][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-26 14:08:13.345][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-26 14:08:13.346][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-26 14:08:13.347][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-26 14:08:13.348][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-26 14:08:13.350][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-26 14:08:13.351][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-26 14:08:13.353][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-26 14:08:13.355][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-26 14:08:13.356][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-26 14:08:13.358][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-26 14:08:13.369][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-26 14:08:13.371][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-26 14:08:13.372][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-26 14:08:13.374][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-26 14:08:13.375][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-26 14:08:13.376][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-26 14:08:13.377][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-26 14:08:13.379][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-26 14:08:13.380][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-26 14:08:13.382][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-26 14:08:13.383][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-26 14:08:13.385][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-26 14:08:13.386][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-26 14:08:13.387][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-26 14:08:13.388][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-26 14:08:13.389][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-26 14:08:13.391][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-26 14:08:13.392][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-26 14:08:13.393][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-26 14:08:13.394][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-26 14:08:13.395][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-26 14:08:13.397][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-26 14:08:13.399][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-26 14:08:13.400][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.401][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.407][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[2025-08-26 14:08:13.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.429][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[2025-08-26 14:08:13.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:13.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.506][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[2025-08-26 14:08:13.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.511][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[2025-08-26 14:08:13.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-26 14:08:13.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.516][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[2025-08-26 14:08:13.519][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-08-26 14:08:13.520][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:13.522][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.523][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.524][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.525][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-26 14:08:13.526][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.527][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-08-26 14:08:13.527][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.528][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.530][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-26 14:08:13.531][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-26 14:08:13.531][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.532][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-08-26 14:08:13.534][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-08-26 14:08:13.535][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-08-26 14:08:13.536][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-26 14:08:13.537][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-26 14:08:13.537][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-08-26 14:08:13.537][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-08-26 14:08:13.538][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-26 14:08:13.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.540][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-26 14:08:13.541][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-26 14:08:13.542][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-26 14:08:13.543][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-26 14:08:13.543][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-26 14:08:13.543][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-08-26 14:08:13.544][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:13.545][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:13.546][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-26 14:08:13.547][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-26 14:08:13.548][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-08-26 14:08:13.549][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-26 14:08:13.550][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-26 14:08:13.552][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-26 14:08:13.553][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-26 14:08:13.556][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:13.557][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-08-26 14:08:13.558][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:13.560][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-26 14:08:13.561][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:13.562][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:13.563][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-08-26 14:08:13.563][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-08-26 14:08:13.564][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-08-26 14:08:13.564][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-08-26 14:08:13.565][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-26 14:08:13.572][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-26 14:08:13.574][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-08-26 14:08:13.575][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-08-26 14:08:13.576][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-08-26 14:08:13.577][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-26 14:08:13.578][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:13.579][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:13.580][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-08-26 14:08:13.582][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-26 14:08:13.582][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-08-26 14:08:13.584][biodb::testThat]
biodb.INFO [2025-08-26 14:08:13.584][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-08-26 14:08:13.585][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-26 14:08:13.586][biodb::testThat]
biodb.DEBUG[2025-08-26 14:08:13.588][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-26 14:08:13.589][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-08-26 14:08:13.590][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-08-26 14:08:13.593][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:13.594][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:13.596][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:13.597][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:13.598][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:13.599][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:13.600][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:13.601][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:13.602][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:13.603][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-26 14:08:13.604][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-08-26 14:08:13.605][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-08-26 14:08:13.606][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 14:08:13.608][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:13.609][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-26 14:08:13.611][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-08-26 14:08:13.612][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-26 14:08:13.614][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-08-26 14:08:13.615][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 14:08:13.617][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-26 14:08:13.618][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-26 14:08:13.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:13.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:13.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:13.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:13.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:13.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:13.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:13.634][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:13.635][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:13.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.637][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:13.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:13.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.642][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:13.643][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:13.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.646][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:13.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:13.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.650][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.651][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.652][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.653][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.661][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.662][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.664][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.665][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.676][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.684][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.687][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.692][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.692][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.695][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.699][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:13.700][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:13.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.702][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.703][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:13.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:13.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.707][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.708][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.709][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.711][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.716][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.717][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.719][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.720][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.725][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:13.726][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:13.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.728][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.730][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:13.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:13.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.735][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:13.736][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:13.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.737][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:13.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:13.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.743][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.744][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.752][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.753][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.756][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.761][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:13.762][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:13.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:13.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:13.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.768][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:13.769][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:13.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.773][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:13.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:13.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.776][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:13.777][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:13.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.780][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:13.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:13.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.784][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:13.785][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:13.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.804][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.806][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:13.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:13.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:13.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:13.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:13.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:13.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:13.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:13.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.822][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.826][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.829][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:13.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.832][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.838][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.843][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:13.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:13.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:13.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.874][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.879][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.883][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:13.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.887][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.890][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.894][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:13.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.897][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:13.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.901][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:13.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:13.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.904][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:13.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:13.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.914][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:13.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:13.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.920][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:13.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:13.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.925][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:13.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:13.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:13.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:13.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:13.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:13.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:13.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:13.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:13.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:13.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:13.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:13.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:13.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:13.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:13.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.960][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.964][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.967][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:13.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:13.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:13.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:13.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:13.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:13.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:13.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:13.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.994][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:13.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:13.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:13.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:13.998][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:13.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:13.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.001][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.004][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.008][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.019][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.024][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:14.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:14.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.028][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:14.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:14.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.033][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:14.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:14.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.037][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:14.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.052][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:14.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.063][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.067][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.074][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.077][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.083][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:14.107][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-08-26 14:08:14.107][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.119][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.125][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.128][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:14.132][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-26 14:08:14.132][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-26 14:08:14.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:14.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:14.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:14.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:14.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:14.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:14.143][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[2025-08-26 14:08:14.144][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-08-26 14:08:14.145][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-08-26 14:08:14.147][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:14.148][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-08-26 14:08:14.150][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-08-26 14:08:14.151][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-26 14:08:14.153][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-08-26 14:08:14.154][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-08-26 14:08:14.155][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-08-26 14:08:14.156][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-08-26 14:08:14.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:14.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:14.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:14.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:14.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:14.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:14.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:14.174][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.183][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.184][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.187][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.191][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.192][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.196][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.200][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.201][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.204][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.206][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.211][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.212][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.214][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.218][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.219][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.222][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.231][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.232][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.233][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.241][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.251][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.253][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.257][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.260][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.261][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.263][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.264][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.268][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.269][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.271][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.272][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.275][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:14.276][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:14.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.278][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:14.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:14.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.283][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:14.284][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:14.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.285][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.286][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:14.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:14.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.290][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.291][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.292][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.297][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.298][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.300][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.307][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.309][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.313][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.318][ef$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.319][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.321][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.322][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:14.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:14.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.329][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:14.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:14.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.334][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:14.335][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:14.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.337][ef$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.339][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-08-26 14:08:14.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:14.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.365][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.370][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.373][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-26 14:08:14.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.377][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.380][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.384][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-08-26 14:08:14.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-26 14:08:14.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-08-26 14:08:14.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.414][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.417][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.421][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-08-26 14:08:14.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.424][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.428][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.431][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-08-26 14:08:14.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:14.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:14.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.438][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:14.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:14.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:14.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-08-26 14:08:14.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.445][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.448][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.451][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.455][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:14.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:14.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:14.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:14.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.471][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-26 14:08:14.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-26 14:08:14.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:14.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:14.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:14.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:14.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-26 14:08:14.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-26 14:08:14.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.501][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.504][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.508][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-26 14:08:14.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-26 14:08:14.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.524][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.531][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.534][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.538][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.541][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-08-26 14:08:14.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.544][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.548][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.551][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-08-26 14:08:14.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.555][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:14.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:14.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.558][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:14.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:14.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.568][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-26 14:08:14.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-26 14:08:14.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.574][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:14.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.591][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-08-26 14:08:14.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-26 14:08:14.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-26 14:08:14.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-26 14:08:14.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.619][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.623][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.632][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-08-26 14:08:14.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-26 14:08:14.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-26 14:08:14.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:14.658][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-08-26 14:08:14.659][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.662][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.665][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.669][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:14.679][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-26 14:08:14.681][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:14.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:14.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:14.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:14.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:14.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:14.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:14.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:14.699][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-26 14:08:14.700][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-08-26 14:08:14.701][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-08-26 14:08:14.703][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:14.704][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:14.706][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:14.707][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:14.708][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:14.709][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:14.710][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:14.711][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:14.712][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:14.713][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-26 14:08:14.714][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-26 14:08:14.716][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.719][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.724][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.728][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.736][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.740][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:14.743][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-26 14:08:14.744][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-26 14:08:14.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:14.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:14.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:14.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:14.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:14.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:14.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:14.756][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.760][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.763][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.766][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.770][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.773][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.777][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:14.780][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-08-26 14:08:14.781][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-26 14:08:14.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:14.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:14.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:14.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:14.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:14.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:14.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-26 14:08:14.807][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-08-26 14:08:14.808][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-08-26 14:08:14.808][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-08-26 14:08:14.810][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:14.812][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:14.813][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-08-26 14:08:14.814][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-08-26 14:08:14.815][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-08-26 14:08:14.816][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-08-26 14:08:14.817][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-08-26 14:08:14.818][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-08-26 14:08:14.819][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-08-26 14:08:14.820][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-08-26 14:08:14.821][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-08-26 14:08:14.823][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.827][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.830][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.833][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.837][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.840][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.844][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:14.847][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-08-26 14:08:14.848][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-08-26 14:08:14.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:14.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:14.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:14.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:14.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:14.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:14.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-26 14:08:14.861][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.866][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.870][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.874][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.877][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.881][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-26 14:08:14.884][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-08-26 14:08:14.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-08-26 14:08:14.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-26 14:08:14.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-26 14:08:14.888][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-08-26 14:08:14.889][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-08-26 14:08:14.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-26 14:08:14.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:14.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:14.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:14.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:14.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:14.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-26 14:08:14.916][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-26 14:08:14.918][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-08-26 14:08:14.919][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-08-26 14:08:14.919][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-26 14:08:14.920][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-26 14:08:14.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-26 14:08:14.922][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-26 14:08:14.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-26 14:08:14.924][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-26 14:08:14.925][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  9.222   0.542  17.186

CHECK results for biodbHmdb on kjohnson1

Summary

Command output

Installation output

Tests output

Example timings