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

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4763
palomino8	Windows Server 2022 Datacenter	x64	4.4.3 (2025-02-28 ucrt) -- "Trophy Case"	4494
merida1	macOS 12.7.5 Monterey	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4521
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.3 (2025-02-28) -- "Trophy Case"	4448
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.3 (2025-02-28) -- "Trophy Case"	4414
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 merida1

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: 1.12.0

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_1.12.0.tar.gz

StartedAt: 2025-03-20 23:59:01 -0400 (Thu, 20 Mar 2025)

EndedAt: 2025-03-21 00:00:34 -0400 (Fri, 21 Mar 2025)

EllapsedTime: 93.7 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_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck’
* using R version 4.4.3 (2025-02-28)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.20-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/4.4-x86_64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/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 x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.3 (2025-02-28) -- "Trophy Case"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-03-21 00:00:02.938][biodb::testContext]
biodb.INFO [2025-03-21 00:00:02.945][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 00:00:02.947][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-03-21 00:00:02.950][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 00:00:02.952][biodb::testContext]
biodb.INFO [2025-03-21 00:00:02.954][biodb::testThat]
biodb.INFO [2025-03-21 00:00:02.957][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-03-21 00:00:02.959][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:02.961][biodb::testThat]
biodb.INFO [2025-03-21 00:00:03.261][biodb::testContext]
biodb.INFO [2025-03-21 00:00:03.264][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 00:00:03.266][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-21 00:00:03.269][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 00:00:03.271][biodb::testContext]
biodb.INFO [2025-03-21 00:00:03.288][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-21 00:00:03.293][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 00:00:03.307][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:03.309][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 00:00:03.312][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 00:00:03.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.320][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 00:00:03.378][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 00:00:03.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.387][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 00:00:03.390][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 00:00:03.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.399][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 00:00:03.402][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 00:00:03.404][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 00:00:03.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.413][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 00:00:03.415][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 00:00:03.417][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 00:00:03.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.426][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 00:00:03.429][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 00:00:03.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.437][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 00:00:03.439][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 00:00:03.441][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 00:00:03.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.450][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 00:00:03.453][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 00:00:03.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.461][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 00:00:03.463][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 00:00:03.465][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 00:00:03.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.474][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 00:00:03.476][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 00:00:03.478][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 00:00:03.481][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 00:00:03.483][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 00:00:03.486][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 00:00:03.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.495][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 00:00:03.497][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 00:00:03.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.507][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 00:00:03.510][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 00:00:03.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.521][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 00:00:03.523][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 00:00:03.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.532][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 00:00:03.535][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 00:00:03.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.543][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 00:00:03.546][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 00:00:03.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.553][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 00:00:03.556][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 00:00:03.573][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 00:00:03.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.581][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 00:00:03.584][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 00:00:03.586][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 00:00:03.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:03.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:03.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:03.599][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 00:00:03.683][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.727][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 00:00:03.729][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.732][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:03.734][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.737][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.740][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.742][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.745][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 00:00:03.747][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:03.750][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.752][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 00:00:03.754][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:03.757][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.759][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.762][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:03.762][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 00:00:03.762][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 00:00:03.762][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 00:00:03.762][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 00:00:03.764][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:03.767][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:03.769][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:03.771][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:03.774][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:03.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:03.787][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.790][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.792][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:03.796][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:03.798][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.800][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.804][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 00:00:03.808][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.810][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 00:00:03.812][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.814][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:03.816][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.819][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.821][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.823][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.825][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 00:00:03.827][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:03.829][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.831][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 00:00:03.833][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:03.835][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.837][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.839][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:03.839][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 00:00:03.839][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 00:00:03.839][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 00:00:03.839][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 00:00:03.842][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:03.844][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:03.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:03.848][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:03.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:03.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:03.854][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.857][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.859][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:03.861][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:03.863][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.866][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.868][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 00:00:03.873][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.875][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 00:00:03.877][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.880][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:03.881][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.883][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.885][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.888][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.890][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 00:00:03.893][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:03.895][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.897][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 00:00:03.900][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:03.902][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.904][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.907][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.909][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:03.912][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:03.914][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:03.916][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:03.918][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:03.921][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:03.923][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.926][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.929][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:03.931][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:03.933][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.935][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.938][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 00:00:03.942][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.945][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 00:00:03.947][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.949][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:03.952][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.954][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.956][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.958][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.960][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 00:00:03.962][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:03.965][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:03.967][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 00:00:03.969][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:03.972][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.974][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:03.977][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.979][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:03.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:03.983][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:03.985][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:03.988][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:03.990][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:03.992][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:03.994][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:03.996][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:03.998][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:04.000][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:04.003][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:04.010][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:04.012][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.194][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 00:00:04.202][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 00:00:04.206][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 00:00:04.209][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 00:00:04.212][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 00:00:04.215][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 00:00:04.218][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 00:00:04.221][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 00:00:04.224][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 00:00:04.227][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 00:00:04.230][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 00:00:04.234][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 00:00:04.237][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 00:00:04.241][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 00:00:04.244][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 00:00:04.248][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 00:00:04.251][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 00:00:04.255][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 00:00:04.258][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 00:00:04.262][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 00:00:04.265][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 00:00:04.268][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 00:00:04.271][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 00:00:04.274][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 00:00:04.277][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 00:00:04.280][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 00:00:04.283][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 00:00:04.286][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 00:00:04.290][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 00:00:04.293][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 00:00:04.296][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 00:00:04.299][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 00:00:04.302][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 00:00:04.305][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 00:00:04.308][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 00:00:04.311][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 00:00:04.314][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 00:00:04.318][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 00:00:04.321][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 00:00:04.325][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 00:00:04.328][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 00:00:04.331][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 00:00:04.334][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 00:00:04.338][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 00:00:04.341][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 00:00:04.344][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 00:00:04.346][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 00:00:04.349][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 00:00:04.352][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 00:00:04.355][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 00:00:04.358][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 00:00:04.361][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 00:00:04.364][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 00:00:04.367][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 00:00:04.370][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 00:00:04.373][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 00:00:04.377][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 00:00:04.380][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 00:00:04.384][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 00:00:04.388][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 00:00:04.391][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 00:00:04.394][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 00:00:04.398][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 00:00:04.401][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 00:00:04.404][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 00:00:04.407][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 00:00:04.410][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 00:00:04.413][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 00:00:04.416][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 00:00:04.420][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 00:00:04.423][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 00:00:04.426][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 00:00:04.430][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 00:00:04.433][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 00:00:04.436][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 00:00:04.439][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 00:00:04.442][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 00:00:04.445][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 00:00:04.448][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 00:00:04.452][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 00:00:04.455][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 00:00:04.458][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 00:00:04.462][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 00:00:04.476][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 00:00:04.480][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-21 00:00:04.486][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:04.488][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.492][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.494][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[2025-03-21 00:00:04.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.755][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.DEBUG[2025-03-21 00:00:04.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:04.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.785][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[2025-03-21 00:00:04.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:04.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:04.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:04.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:04.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:04.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:04.802][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[2025-03-21 00:00:04.806][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-21 00:00:04.832][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:04.836][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:04.839][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 00:00:04.841][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:04.844][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:04.846][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:04.849][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-21 00:00:04.852][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:04.854][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:04.857][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 00:00:04.859][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:04.862][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:04.865][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-21 00:00:04.886][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-21 00:00:04.889][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-21 00:00:04.892][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:04.894][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:04.894][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-21 00:00:04.894][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-21 00:00:04.897][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 00:00:04.899][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:04.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:04.904][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:04.906][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:04.908][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:04.910][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:04.913][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-21 00:00:04.913][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-21 00:00:04.915][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:04.917][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:04.919][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:04.922][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:04.938][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-21 00:00:04.942][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 00:00:04.945][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 00:00:04.949][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 00:00:04.953][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 00:00:04.995][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:04.997][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-21 00:00:05.006][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:05.014][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:05.023][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:05.026][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:05.029][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-21 00:00:05.032][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-21 00:00:05.034][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-21 00:00:05.034][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-21 00:00:05.037][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:05.040][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:05.042][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-21 00:00:05.045][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-21 00:00:05.048][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:05.107][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:05.110][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:05.113][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:05.116][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:05.119][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:05.121][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-21 00:00:05.137][biodb::testThat]
biodb.INFO [2025-03-21 00:00:05.139][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-03-21 00:00:05.142][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:05.144][biodb::testThat]
biodb.TRACE[2025-03-21 00:00:05.152][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-03-21 00:00:05.156][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-21 00:00:05.162][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-21 00:00:05.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:05.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:05.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:05.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:05.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:05.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:05.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:05.219][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:05.222][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:05.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.227][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:05.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:05.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.273][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:05.276][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:05.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.280][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.354][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:05.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:05.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.365][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.368][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.372][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.375][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.386][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.389][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.393][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.396][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.407][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.409][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.415][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.428][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.431][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.436][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.449][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:05.452][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:05.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.457][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.460][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:05.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:05.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.483][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:05.486][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:05.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.493][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.496][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:05.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:05.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.507][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.509][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.514][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.517][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.529][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.531][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.536][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.540][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.550][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:05.553][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:05.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.558][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:05.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:05.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.571][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:05.574][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:05.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.579][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.582][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:05.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:05.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.592][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:05.595][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:05.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.599][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:05.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:05.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.614][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:05.616][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:05.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.621][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:05.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:05.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.633][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:05.636][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:05.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.640][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:05.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:05.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.652][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:05.655][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:05.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.659][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.662][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:05.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:05.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.670][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:05.673][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:05.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.677][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.679][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:05.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:05.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.689][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:05.692][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:05.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.699][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:05.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:05.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:05.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:05.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:05.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:05.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:05.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:05.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.832][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.842][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.851][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:05.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.861][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.871][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.880][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:05.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:05.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:05.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.954][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.963][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:05.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.973][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.982][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:05.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:05.993][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:05.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.003][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:06.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:06.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:06.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:06.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.023][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:06.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:06.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.032][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:06.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:06.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.041][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:06.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:06.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.051][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:06.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:06.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.060][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:06.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:06.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.070][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:06.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:06.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:06.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:06.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:06.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:06.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:06.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:06.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:06.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:06.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.142][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:06.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:06.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.152][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:06.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:06.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.168][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:06.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:06.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:06.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:06.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:06.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:06.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:06.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:06.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.206][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:06.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:06.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.216][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:06.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:06.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.225][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:06.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:06.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.235][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.245][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.255][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.265][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.276][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.287][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.297][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:06.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:06.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.306][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:06.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:06.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.316][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:06.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:06.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.325][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:06.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.333][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.359][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:06.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:06.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:06.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:06.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:06.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:06.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.432][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:06.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:06.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:06.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:06.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:06.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:06.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.460][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.470][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.490][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:06.560][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-21 00:00:06.566][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 00:00:06.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 00:00:06.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.575][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 00:00:06.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 00:00:06.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.584][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 00:00:06.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 00:00:06.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.594][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 00:00:06.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 00:00:06.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.649][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.731][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.740][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.749][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:06.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.800][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.803][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.807][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:06.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:06.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.839][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.855][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.863][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.871][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.874][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.878][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.881][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:06.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.938][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.940][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.944][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:06.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.975][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.987][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:06.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:06.996][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:06.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:07.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.005][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:07.007][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:07.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.011][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.013][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:07.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:07.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.062][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.070][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:07.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.091][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.100][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.109][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.118][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.120][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.125][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.127][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:07.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:07.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:07.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:07.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:07.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.175][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:07.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:07.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.184][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:07.186][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:07.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.189][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:07.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:07.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.215][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:07.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:07.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.225][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:07.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:07.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:07.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:07.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.243][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:07.245][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:07.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.250][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.252][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:07.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:07.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:07.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:07.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.289][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:07.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:07.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.298][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:07.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:07.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.308][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:07.310][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:07.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.315][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.317][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:07.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:07.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.344][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.353][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.361][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.370][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.372][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.377][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.379][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.437][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.439][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.443][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:07.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.475][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.511][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.528][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.530][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.534][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.536][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:07.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.562][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.573][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.586][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.595][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.598][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.602][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.605][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:07.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.641][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.650][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.659][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.662][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.666][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.668][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:07.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.695][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:07.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:07.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.704][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:07.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:07.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.713][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:07.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:07.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.722][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:07.724][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:07.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.728][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.731][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:07.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:07.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.758][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:07.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:07.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:07.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:07.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:07.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:07.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.786][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:07.788][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:07.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.792][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:07.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:07.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.850][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.861][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.866][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:07.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.896][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.906][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.916][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.925][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.927][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.931][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.933][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:07.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.965][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:07.967][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:07.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.972][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:07.983][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.986][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:07.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:07.990][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.001][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.003][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.008][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.020][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.026][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.038][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:08.041][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:08.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.046][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.057][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:08.059][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:08.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.063][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.075][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:08.078][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:08.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.082][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.094][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:08.097][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:08.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.101][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.113][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:08.116][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:08.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.121][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.133][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:08.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:08.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.140][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.150][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:08.152][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:08.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.157][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.168][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:08.171][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:08.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.175][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.186][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:08.189][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:08.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.194][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:08.208][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:08.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.220][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.231][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:08.234][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:08.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.238][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.249][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:08.252][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:08.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.256][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.268][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:08.270][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:08.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.274][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.285][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:08.287][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:08.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.292][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 00:00:08.310][biodb::testThat]
biodb.INFO [2025-03-21 00:00:08.313][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-21 00:00:08.315][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:08.317][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:08.355][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-21 00:00:08.368][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-21 00:00:08.374][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:08.377][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-21 00:00:08.382][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-21 00:00:08.385][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 00:00:08.398][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-21 00:00:08.401][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 00:00:08.469][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-21 00:00:08.471][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-21 00:00:08.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:08.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:08.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:08.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:08.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:08.495][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:08.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:08.506][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:08.508][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:08.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.512][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:08.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:08.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.523][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:08.525][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:08.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.530][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.533][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:08.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:08.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.543][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.545][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.550][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.553][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.571][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.574][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.578][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.581][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.591][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.593][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.597][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.610][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:08.613][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:08.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.617][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:08.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.631][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:08.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:08.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.638][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.641][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:08.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:08.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.649][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:08.652][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:08.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.656][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.659][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:08.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:08.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.669][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:08.672][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:08.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.676][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.679][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:08.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:08.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.689][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:08.691][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:08.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.699][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:08.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:08.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.708][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:08.711][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:08.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.716][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.719][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:08.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:08.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.729][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:08.731][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:08.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.737][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:08.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:08.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.751][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:08.754][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:08.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.757][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:08.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:08.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.770][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:08.773][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:08.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.777][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:08.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:08.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.790][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:08.793][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:08.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.797][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:08.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:08.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.809][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:08.812][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:08.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.816][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.819][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:08.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:08.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:08.831][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:08.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.835][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.838][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:08.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:08.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.848][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:08.851][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:08.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.855][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.858][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:08.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:08.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:08.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:08.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:08.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:08.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:08.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:08.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.897][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.914][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.924][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:08.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.934][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.944][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.954][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:08.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:08.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:08.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:08.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:08.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:08.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:09.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:09.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:09.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:09.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.022][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:09.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:09.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.031][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:09.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:09.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.041][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:09.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:09.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.050][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:09.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:09.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.059][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:09.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:09.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.068][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:09.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:09.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.076][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:09.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:09.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.085][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:09.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:09.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.094][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:09.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:09.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.103][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:09.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:09.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.112][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:09.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:09.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.120][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:09.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:09.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.132][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:09.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:09.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:09.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:09.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.150][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:09.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:09.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:09.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:09.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:09.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:09.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:09.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:09.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.187][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.205][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.214][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:09.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:09.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.232][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:09.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:09.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.242][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:09.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:09.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:09.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:09.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:09.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:09.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:09.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:09.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.279][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.307][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:09.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:09.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.315][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:09.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:09.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.325][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:09.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:09.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.333][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:09.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:09.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.342][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:09.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:09.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.351][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:09.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:09.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.360][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:09.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:09.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:09.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:09.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:09.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.387][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:09.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:09.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:09.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.437][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.484][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:09.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:09.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.494][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:09.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:09.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:09.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:09.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.514][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:09.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:09.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:09.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:09.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:09.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:09.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:09.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:09.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:09.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:09.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:09.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:09.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:09.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:09.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:09.588][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-21 00:00:09.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-21 00:00:09.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-21 00:00:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-21 00:00:09.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-21 00:00:09.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-21 00:00:09.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-21 00:00:09.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 00:00:09.633][biodb::testThat]
biodb.INFO [2025-03-21 00:00:09.636][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-21 00:00:09.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:09.640][biodb::testThat]
biodb.TRACE[2025-03-21 00:00:09.647][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.649][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.653][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:09.656][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-03-21 00:00:09.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.729][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:09.753][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-03-21 00:00:09.756][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-21 00:00:09.758][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-21 00:00:09.760][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-21 00:00:09.764][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:09.767][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:09.771][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:09.774][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:09.777][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:09.780][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:09.782][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:09.785][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:09.787][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:09.790][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-21 00:00:09.792][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-21 00:00:09.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.806][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:09.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:09.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:09.835][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-21 00:00:09.837][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-21 00:00:09.839][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-21 00:00:09.866][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:09.868][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:09.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.880][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:09.882][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-03-21 00:00:09.911][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:09.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:09.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.920][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:09.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:09.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:09.929][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:09.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:09.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:09.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:09.945][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[2025-03-21 00:00:10.089][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-21 00:00:10.091][private$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[2025-03-21 00:00:10.093][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-03-21 00:00:10.132][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.136][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.140][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:10.144][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.146][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:10.198][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:10.200][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:10.222][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:10.224][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:10.226][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-21 00:00:10.229][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-21 00:00:10.233][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:10.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:10.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.241][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:10.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:10.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.252][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:10.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:10.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.263][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:10.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:10.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:10.272][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-21 00:00:10.274][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-21 00:00:10.276][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-21 00:00:10.305][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.307][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.313][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:10.315][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-03-21 00:00:10.343][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.353][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.363][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:10.375][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-03-21 00:00:10.379][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-03-21 00:00:10.382][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-21 00:00:10.384][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-21 00:00:10.388][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.392][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.396][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:10.399][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.402][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:10.406][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:10.408][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:10.411][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:10.413][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:10.415][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-21 00:00:10.418][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-21 00:00:10.422][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.432][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.441][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.450][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:10.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:10.459][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-21 00:00:10.461][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-21 00:00:10.463][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-03-21 00:00:10.498][biodb::testThat]
biodb.INFO [2025-03-21 00:00:10.501][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-03-21 00:00:10.503][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:10.505][biodb::testThat]
biodb.TRACE[2025-03-21 00:00:10.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:10.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:10.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.545][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:10.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:10.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:10.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:10.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:10.585][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-21 00:00:10.587][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-21 00:00:10.589][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-21 00:00:10.593][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.596][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.599][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:10.602][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:10.604][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:10.606][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:10.608][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:10.610][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:10.612][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:10.614][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-21 00:00:10.616][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-21 00:00:10.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:10.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:10.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:10.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:10.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:10.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:10.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:10.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:10.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:10.659][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-21 00:00:10.661][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-03-21 00:00:10.694][biodb::testThat]
biodb.INFO [2025-03-21 00:00:10.696][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-03-21 00:00:10.698][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:10.700][biodb::testThat]
biodb.TRACE[2025-03-21 00:00:10.746][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 00:00:10.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 00:00:10.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.753][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 00:00:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 00:00:10.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.760][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 00:00:10.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 00:00:10.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.770][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 00:00:10.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 00:00:10.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.896][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 00:00:10.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 00:00:10.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.905][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 00:00:10.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 00:00:10.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.915][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 00:00:10.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 00:00:10.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:10.924][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 00:00:10.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 00:00:10.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:10.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 00:00:10.973][biodb::testThat]
biodb.INFO [2025-03-21 00:00:10.976][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-21 00:00:10.978][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:10.980][biodb::testThat]
biodb.INFO [2025-03-21 00:00:10.998][biodb::testThat]
biodb.INFO [2025-03-21 00:00:11.000][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-21 00:00:11.003][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:11.005][biodb::testThat]
biodb.INFO [2025-03-21 00:00:11.022][biodb::testThat]
biodb.INFO [2025-03-21 00:00:11.025][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-21 00:00:11.027][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:11.029][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:11.036][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-03-21 00:00:12.719][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-03-21 00:00:12.816][biodb::testThat]
biodb.INFO [2025-03-21 00:00:12.819][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-21 00:00:12.821][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:12.823][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:13.049][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-03-21 00:00:13.130][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:13.132][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:13.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.137][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.139][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:13.141][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:13.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.146][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.148][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:13.151][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:13.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.155][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 00:00:13.159][biodb::testThat]
biodb.INFO [2025-03-21 00:00:13.161][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-03-21 00:00:13.163][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:13.166][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:13.170][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-21 00:00:13.307][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-21 00:00:13.311][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.314][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-21 00:00:13.354][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-21 00:00:13.357][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 00:00:13.359][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 00:00:13.362][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 00:00:13.365][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.368][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-21 00:00:13.371][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-21 00:00:13.374][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:13.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:13.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:13.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:13.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:13.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:13.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:13.398][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:13.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:13.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:13.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:13.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:13.521][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-21 00:00:13.528][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-21 00:00:13.563][biodb::testThat]
biodb.INFO [2025-03-21 00:00:13.565][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-21 00:00:13.567][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:13.569][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:13.589][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-03-21 00:00:13.592][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-03-21 00:00:13.594][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-21 00:00:13.597][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.600][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-21 00:00:13.604][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-03-21 00:00:13.607][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 00:00:13.610][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 00:00:13.612][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 00:00:13.616][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.618][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-21 00:00:13.621][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-21 00:00:13.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:13.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:13.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:13.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:13.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:13.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:13.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:13.649][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:13.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:13.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.658][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:13.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:13.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:13.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:13.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:13.717][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-21 00:00:13.719][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-21 00:00:13.720][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-03-21 00:00:13.758][biodb::testThat]
biodb.INFO [2025-03-21 00:00:13.760][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-03-21 00:00:13.762][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:13.764][biodb::testThat]
biodb.INFO [2025-03-21 00:00:13.816][biodb::testThat]
biodb.INFO [2025-03-21 00:00:13.818][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-03-21 00:00:13.820][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:13.821][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:13.825][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.829][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.832][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:13.835][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.837][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:13.839][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:13.841][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:13.843][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:13.846][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-03-21 00:00:13.863][biodb::testThat]
biodb.INFO [2025-03-21 00:00:13.865][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-03-21 00:00:13.867][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:13.869][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:13.874][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.877][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.881][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:13.884][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:13.886][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:13.890][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:13.892][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:13.895][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:13.896][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-03-21 00:00:13.915][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:13.917][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:13.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.921][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.923][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:13.925][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:13.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.929][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:13.932][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:13.934][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:13.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:13.938][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 00:00:13.940][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 00:00:13.943][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-21 00:00:13.962][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-21 00:00:13.964][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 00:00:13.966][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:13.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:13.970][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:13.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:13.974][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:13.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 00:00:13.993][biodb::testContext]
biodb.INFO [2025-03-21 00:00:13.995][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 00:00:13.998][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-03-21 00:00:14.000][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 00:00:14.003][biodb::testContext]
biodb.INFO [2025-03-21 00:00:14.011][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-21 00:00:14.015][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 00:00:14.023][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:14.025][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 00:00:14.028][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 00:00:14.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.036][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 00:00:14.038][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 00:00:14.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.045][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 00:00:14.047][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 00:00:14.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.056][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 00:00:14.057][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 00:00:14.060][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 00:00:14.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.068][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 00:00:14.070][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 00:00:14.073][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 00:00:14.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.081][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 00:00:14.084][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 00:00:14.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.092][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 00:00:14.094][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 00:00:14.097][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 00:00:14.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.105][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 00:00:14.108][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 00:00:14.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.116][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 00:00:14.118][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 00:00:14.121][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 00:00:14.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.129][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 00:00:14.131][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 00:00:14.133][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 00:00:14.135][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 00:00:14.138][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 00:00:14.139][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 00:00:14.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.147][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 00:00:14.150][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 00:00:14.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.158][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 00:00:14.160][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 00:00:14.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.168][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 00:00:14.171][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 00:00:14.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.179][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 00:00:14.182][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 00:00:14.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.190][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 00:00:14.193][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 00:00:14.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.200][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 00:00:14.202][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 00:00:14.220][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 00:00:14.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.229][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 00:00:14.232][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 00:00:14.234][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 00:00:14.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.243][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 00:00:14.247][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.295][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 00:00:14.297][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.299][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:14.301][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.303][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.305][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.308][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.310][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 00:00:14.312][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:14.315][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.317][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 00:00:14.320][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:14.322][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.324][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.326][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:14.326][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 00:00:14.326][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 00:00:14.326][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 00:00:14.326][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 00:00:14.328][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:14.330][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:14.332][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:14.334][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:14.337][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:14.339][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:14.341][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.343][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.345][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:14.347][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:14.349][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.351][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.354][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 00:00:14.358][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.360][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 00:00:14.362][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.365][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:14.367][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.369][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.371][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.373][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.375][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 00:00:14.377][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:14.380][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.382][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 00:00:14.383][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:14.385][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.387][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.389][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:14.389][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 00:00:14.389][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 00:00:14.389][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 00:00:14.389][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 00:00:14.391][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:14.393][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:14.395][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:14.397][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:14.399][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:14.401][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:14.403][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.405][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.408][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:14.410][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:14.412][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.414][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.417][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 00:00:14.421][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.423][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 00:00:14.426][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.428][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:14.430][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.432][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.434][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.437][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.439][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 00:00:14.441][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:14.443][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.445][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 00:00:14.448][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:14.450][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.452][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.454][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.457][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:14.459][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:14.461][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:14.463][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:14.465][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:14.467][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:14.469][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.471][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.473][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:14.475][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:14.477][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.479][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.490][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 00:00:14.494][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.496][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 00:00:14.499][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.501][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:14.503][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.505][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.507][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.510][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.512][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 00:00:14.514][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:14.516][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.519][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 00:00:14.521][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:14.523][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.525][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:14.528][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.530][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:14.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:14.533][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:14.535][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:14.537][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:14.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:14.541][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:14.543][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.546][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:14.548][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:14.550][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:14.552][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:14.555][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:14.557][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.592][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.DEBUG[2025-03-21 00:00:14.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.694][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[2025-03-21 00:00:14.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:14.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:14.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:14.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:14.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:14.722][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[2025-03-21 00:00:14.724][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 00:00:14.727][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 00:00:14.731][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 00:00:14.734][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 00:00:14.737][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 00:00:14.739][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 00:00:14.742][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 00:00:14.746][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 00:00:14.749][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 00:00:14.752][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 00:00:14.756][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 00:00:14.759][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 00:00:14.761][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 00:00:14.764][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 00:00:14.768][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 00:00:14.771][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 00:00:14.774][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 00:00:14.777][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 00:00:14.781][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 00:00:14.784][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 00:00:14.787][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 00:00:14.789][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 00:00:14.791][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 00:00:14.794][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 00:00:14.798][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 00:00:14.801][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 00:00:14.804][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 00:00:14.808][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 00:00:14.811][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 00:00:14.815][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 00:00:14.818][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 00:00:14.822][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 00:00:14.825][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 00:00:14.828][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 00:00:14.831][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 00:00:14.834][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 00:00:14.837][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 00:00:14.841][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 00:00:14.844][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 00:00:14.847][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 00:00:14.849][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 00:00:14.851][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 00:00:14.853][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 00:00:14.855][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 00:00:14.857][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 00:00:14.860][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 00:00:14.862][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 00:00:14.865][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 00:00:14.868][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 00:00:14.872][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 00:00:14.874][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 00:00:14.876][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 00:00:14.878][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 00:00:14.880][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 00:00:14.882][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 00:00:14.886][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 00:00:14.889][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 00:00:14.893][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 00:00:14.896][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 00:00:14.900][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 00:00:14.903][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 00:00:14.907][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 00:00:14.910][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 00:00:14.913][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 00:00:14.916][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 00:00:14.919][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 00:00:14.923][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 00:00:14.926][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 00:00:14.929][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 00:00:14.942][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 00:00:14.945][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 00:00:14.949][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 00:00:14.952][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 00:00:14.956][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 00:00:14.959][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 00:00:14.963][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 00:00:14.966][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 00:00:14.970][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 00:00:14.973][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 00:00:14.977][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 00:00:14.981][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 00:00:14.983][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 00:00:14.986][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 00:00:14.990][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 00:00:14.994][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-21 00:00:14.996][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:14.998][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.003][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.047][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[2025-03-21 00:00:15.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.076][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[2025-03-21 00:00:15.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.245][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[2025-03-21 00:00:15.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:15.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:15.264][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-21 00:00:15.288][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:15.292][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:15.295][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 00:00:15.298][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:15.300][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:15.303][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:15.306][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-21 00:00:15.308][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:15.311][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:15.313][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 00:00:15.316][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:15.318][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:15.321][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-21 00:00:15.323][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-21 00:00:15.326][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-21 00:00:15.329][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:15.332][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:15.332][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-21 00:00:15.332][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-21 00:00:15.334][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 00:00:15.336][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:15.339][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:15.341][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:15.343][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:15.346][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:15.348][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:15.351][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-21 00:00:15.351][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-21 00:00:15.354][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:15.356][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:15.359][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:15.361][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:15.365][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-21 00:00:15.369][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 00:00:15.373][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 00:00:15.377][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 00:00:15.381][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 00:00:15.390][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:15.392][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-21 00:00:15.395][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:15.399][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:15.402][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:15.404][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:15.407][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-21 00:00:15.410][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-21 00:00:15.413][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-21 00:00:15.413][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-21 00:00:15.416][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:15.418][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:15.421][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-21 00:00:15.423][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-21 00:00:15.425][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:15.429][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:15.432][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:15.434][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:15.445][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:15.449][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:15.451][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-21 00:00:15.454][biodb::testThat]
biodb.INFO [2025-03-21 00:00:15.457][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-03-21 00:00:15.459][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:15.461][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:15.469][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:15.472][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:15.476][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:15.479][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:15.482][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:15.485][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:15.488][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:15.490][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:15.493][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:15.499][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-21 00:00:15.512][biodb::testThat]
biodb.INFO [2025-03-21 00:00:15.514][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-03-21 00:00:15.516][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:15.519][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:15.555][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-21 00:00:15.558][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-21 00:00:15.562][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:15.566][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-21 00:00:15.571][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-21 00:00:15.574][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 00:00:15.660][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-21 00:00:15.663][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 00:00:15.665][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-21 00:00:15.668][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-21 00:00:15.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:15.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:15.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:15.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:15.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:15.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:15.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:15.707][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:15.709][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:15.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.714][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:15.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:15.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.726][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:15.728][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:15.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.732][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.735][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:15.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:15.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.744][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:15.747][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:15.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.751][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.754][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:15.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:15.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.763][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:15.765][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:15.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.772][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:15.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:15.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:15.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:15.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.795][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:15.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:15.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.808][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:15.810][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:15.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.815][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:15.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:15.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.827][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:15.830][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:15.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.834][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.837][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:15.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:15.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.846][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:15.849][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:15.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.853][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.856][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:15.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:15.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.866][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:15.869][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:15.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.873][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.876][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:15.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:15.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.885][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:15.888][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:15.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.892][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.894][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:15.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:15.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.903][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:15.906][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:15.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.910][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.912][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:15.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:15.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.922][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:15.925][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:15.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.929][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:15.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:15.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.942][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:15.944][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:15.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.948][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:15.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:15.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.959][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:15.962][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:15.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.966][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:15.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:15.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.979][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:15.982][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:15.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.986][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:15.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:15.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:15.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:15.999][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:16.001][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:16.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.006][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.009][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:16.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:16.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.017][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:16.019][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:16.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.023][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:16.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:16.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.043][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:16.046][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:16.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.050][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.053][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:16.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:16.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.090][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:16.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:16.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.099][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:16.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:16.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.108][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:16.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:16.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.117][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:16.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:16.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.127][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:16.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:16.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.137][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:16.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:16.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:16.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:16.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:16.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:16.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:16.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:16.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:16.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:16.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:16.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:16.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:16.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:16.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.202][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:16.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:16.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:16.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:16.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.216][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:16.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:16.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.222][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:16.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:16.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.232][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:16.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:16.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:16.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:16.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.251][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:16.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:16.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.260][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:16.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:16.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.269][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:16.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:16.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.285][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:16.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:16.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.294][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:16.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:16.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.304][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:16.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:16.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.313][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:16.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:16.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.324][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:16.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:16.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:16.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:16.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:16.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:16.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:16.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:16.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:16.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:16.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.393][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:16.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:16.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.403][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:16.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:16.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.412][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:16.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:16.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:16.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:16.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:16.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:16.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:16.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:16.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:16.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:16.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:16.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:16.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:16.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:16.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.476][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:16.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:16.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.486][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:16.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:16.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.495][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:16.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:16.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.504][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:16.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:16.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.513][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:16.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:16.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.530][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:16.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:16.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.541][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:16.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:16.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:16.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:16.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.558][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:16.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:16.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.567][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:16.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.605][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:16.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:16.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:16.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:16.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:16.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:16.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:16.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:16.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.646][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:16.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:16.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.656][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:16.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:16.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.667][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:16.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:16.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.676][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:16.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:16.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.694][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:16.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:16.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:16.767][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-21 00:00:16.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:16.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:16.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:16.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:16.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 00:00:16.818][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 00:00:16.821][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-21 00:00:16.823][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-21 00:00:16.826][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 00:00:16.828][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:16.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:16.832][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:16.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:16.836][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 00:00:16.847][biodb::testContext]
biodb.INFO [2025-03-21 00:00:16.849][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 00:00:16.852][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-03-21 00:00:16.854][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 00:00:16.856][biodb::testContext]
biodb.INFO [2025-03-21 00:00:16.866][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-21 00:00:16.871][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 00:00:16.879][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:16.881][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 00:00:16.882][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 00:00:16.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.890][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 00:00:16.892][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 00:00:16.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.900][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 00:00:16.902][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 00:00:16.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.910][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 00:00:16.912][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 00:00:16.914][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 00:00:16.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.922][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 00:00:16.924][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 00:00:16.927][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 00:00:16.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.935][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 00:00:16.938][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 00:00:16.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.947][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 00:00:16.949][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 00:00:16.952][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 00:00:16.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.960][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 00:00:16.963][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 00:00:16.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.972][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 00:00:16.974][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 00:00:16.977][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 00:00:16.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:16.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:16.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:16.985][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 00:00:16.987][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 00:00:16.989][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 00:00:16.992][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 00:00:16.994][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 00:00:16.997][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 00:00:16.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.005][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 00:00:17.007][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 00:00:17.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.017][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 00:00:17.020][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 00:00:17.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.037][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 00:00:17.039][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 00:00:17.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.047][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 00:00:17.050][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 00:00:17.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.058][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 00:00:17.061][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 00:00:17.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.068][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 00:00:17.070][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 00:00:17.086][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 00:00:17.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.094][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 00:00:17.097][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 00:00:17.099][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 00:00:17.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.108][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 00:00:17.113][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.157][self$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[2025-03-21 00:00:17.160][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.162][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:17.164][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.166][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.169][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.171][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.173][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 00:00:17.175][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:17.178][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.180][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 00:00:17.182][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:17.184][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.186][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.189][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:17.189][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 00:00:17.189][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 00:00:17.189][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 00:00:17.189][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 00:00:17.191][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:17.193][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:17.196][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:17.198][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:17.200][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:17.202][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:17.204][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.206][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.209][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:17.211][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:17.213][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.216][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.219][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 00:00:17.223][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.226][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 00:00:17.229][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.231][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:17.233][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.235][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.237][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.240][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.242][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 00:00:17.244][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:17.246][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.247][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 00:00:17.250][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:17.252][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.254][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.257][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:17.257][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 00:00:17.257][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 00:00:17.257][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 00:00:17.257][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 00:00:17.259][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:17.261][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:17.263][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:17.265][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:17.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:17.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:17.272][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.274][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.284][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:17.286][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:17.288][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.290][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.293][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 00:00:17.297][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.299][self$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[2025-03-21 00:00:17.301][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.303][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:17.305][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.307][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.309][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.311][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.313][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 00:00:17.316][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:17.318][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.320][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 00:00:17.323][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:17.324][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.327][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.329][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.331][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:17.332][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:17.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:17.337][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:17.339][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:17.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:17.343][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.345][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.347][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:17.349][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:17.351][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.353][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.356][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 00:00:17.360][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.362][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 00:00:17.364][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.366][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:17.369][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.371][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.373][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.375][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.376][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 00:00:17.379][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:17.381][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.383][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 00:00:17.386][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:17.388][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.390][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:17.392][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.393][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 00:00:17.395][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:17.396][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:17.397][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:17.399][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:17.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:17.402][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:17.405][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.407][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:17.409][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:17.411][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:17.413][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:17.417][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:17.419][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.429][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[2025-03-21 00:00:17.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.437][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[2025-03-21 00:00:17.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.463][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[2025-03-21 00:00:17.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.483][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[2025-03-21 00:00:17.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.587][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 00:00:17.591][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 00:00:17.594][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 00:00:17.596][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 00:00:17.599][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 00:00:17.602][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 00:00:17.605][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 00:00:17.609][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 00:00:17.611][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 00:00:17.614][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 00:00:17.617][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 00:00:17.620][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 00:00:17.624][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 00:00:17.627][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 00:00:17.630][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 00:00:17.633][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 00:00:17.636][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 00:00:17.639][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 00:00:17.641][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 00:00:17.644][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 00:00:17.646][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 00:00:17.650][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 00:00:17.653][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 00:00:17.656][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 00:00:17.659][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 00:00:17.663][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 00:00:17.666][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 00:00:17.669][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 00:00:17.672][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 00:00:17.675][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 00:00:17.679][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 00:00:17.681][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 00:00:17.684][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 00:00:17.687][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 00:00:17.690][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 00:00:17.693][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 00:00:17.696][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 00:00:17.699][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 00:00:17.702][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 00:00:17.705][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 00:00:17.716][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 00:00:17.719][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 00:00:17.722][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 00:00:17.726][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 00:00:17.729][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 00:00:17.733][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 00:00:17.736][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 00:00:17.739][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 00:00:17.743][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 00:00:17.746][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 00:00:17.749][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 00:00:17.753][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 00:00:17.756][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 00:00:17.760][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 00:00:17.763][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 00:00:17.766][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 00:00:17.769][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 00:00:17.772][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 00:00:17.775][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 00:00:17.779][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 00:00:17.783][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 00:00:17.786][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 00:00:17.789][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 00:00:17.793][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 00:00:17.796][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 00:00:17.800][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 00:00:17.803][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 00:00:17.807][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 00:00:17.811][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 00:00:17.814][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 00:00:17.818][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 00:00:17.821][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 00:00:17.825][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 00:00:17.828][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 00:00:17.832][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 00:00:17.835][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 00:00:17.838][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 00:00:17.842][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 00:00:17.845][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 00:00:17.849][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 00:00:17.852][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 00:00:17.856][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 00:00:17.859][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 00:00:17.863][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 00:00:17.866][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-21 00:00:17.868][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 00:00:17.870][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.874][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:17.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:17.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:17.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:17.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:17.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:17.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:17.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:17.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:17.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:17.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:17.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:17.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:17.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.975][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[2025-03-21 00:00:17.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:17.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:17.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:17.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:17.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:17.989][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[2025-03-21 00:00:17.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:17.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:17.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:17.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.020][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[2025-03-21 00:00:18.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 00:00:18.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:18.136][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-21 00:00:18.139][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:18.144][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:18.146][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 00:00:18.149][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:18.151][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 00:00:18.153][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:18.155][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-21 00:00:18.157][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:18.160][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 00:00:18.162][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 00:00:18.164][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 00:00:18.167][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:18.169][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-21 00:00:18.172][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-21 00:00:18.174][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-21 00:00:18.178][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 00:00:18.180][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 00:00:18.180][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-21 00:00:18.180][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-21 00:00:18.183][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 00:00:18.185][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:18.195][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:18.197][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 00:00:18.200][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 00:00:18.202][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 00:00:18.205][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 00:00:18.207][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-21 00:00:18.207][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-21 00:00:18.209][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:18.211][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:18.213][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 00:00:18.215][self$setPropertyValue]
biodb.DEBUG[2025-03-21 00:00:18.218][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-21 00:00:18.221][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 00:00:18.225][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 00:00:18.228][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 00:00:18.232][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 00:00:18.239][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:18.241][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-21 00:00:18.243][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:18.245][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:18.248][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:18.250][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:18.253][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-21 00:00:18.256][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-21 00:00:18.258][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-21 00:00:18.258][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-21 00:00:18.261][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 00:00:18.263][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 00:00:18.265][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-21 00:00:18.267][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-21 00:00:18.270][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-21 00:00:18.273][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:18.276][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:18.278][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:18.282][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-21 00:00:18.285][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 00:00:18.287][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-21 00:00:18.290][biodb::testThat]
biodb.INFO [2025-03-21 00:00:18.292][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-03-21 00:00:18.295][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 00:00:18.297][biodb::testThat]
biodb.DEBUG[2025-03-21 00:00:18.302][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-21 00:00:18.305][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-21 00:00:18.306][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-21 00:00:18.311][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:18.313][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:18.317][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:18.320][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:18.323][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:18.326][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:18.329][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:18.331][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:18.334][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:18.336][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-21 00:00:18.338][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-03-21 00:00:18.374][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-21 00:00:18.376][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-21 00:00:18.380][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:18.384][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-21 00:00:18.389][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-21 00:00:18.392][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 00:00:18.395][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-21 00:00:18.398][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 00:00:18.400][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-21 00:00:18.403][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-21 00:00:18.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:18.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:18.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:18.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:18.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:18.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:18.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:18.446][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:18.449][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:18.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.453][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:18.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:18.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.464][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:18.466][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:18.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.470][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.473][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:18.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:18.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.481][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.484][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.488][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.490][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.500][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.502][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.507][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.510][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.519][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.521][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.526][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.537][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.540][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.544][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.557][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:18.559][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:18.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.564][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.567][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:18.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:18.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.577][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:18.580][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:18.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.585][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.588][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:18.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:18.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.598][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:18.600][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:18.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.605][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.608][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:18.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:18.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.618][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:18.620][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:18.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.625][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.627][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:18.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:18.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.637][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:18.640][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:18.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.645][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:18.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:18.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.657][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:18.660][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:18.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.664][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:18.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:18.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.692][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:18.694][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:18.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.699][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:18.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:18.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:18.715][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:18.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.719][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:18.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:18.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.732][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:18.734][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:18.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.738][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:18.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:18.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.750][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:18.753][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:18.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.757][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.760][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:18.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:18.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.770][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:18.772][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:18.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.777][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.780][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:18.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:18.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.791][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:18.793][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:18.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.797][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.801][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:18.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:18.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:18.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:18.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:18.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:18.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:18.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:18.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.840][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.850][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.860][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:18.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.871][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.880][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.890][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:18.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:18.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:18.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.988][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:18.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:18.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:18.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:18.997][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:18.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:19.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.006][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:19.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:19.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.015][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.024][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.042][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:19.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:19.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.051][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:19.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:19.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.060][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:19.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:19.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.070][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.080][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.089][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:19.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:19.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:19.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:19.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.115][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:19.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:19.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:19.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:19.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.133][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:19.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:19.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:19.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:19.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.180][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.189][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.199][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.253][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.271][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.281][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.290][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.308][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.318][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.328][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:19.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:19.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.337][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:19.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:19.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.347][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:19.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:19.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.357][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:19.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.396][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:19.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.408][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.437][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.457][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:19.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:19.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.475][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:19.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:19.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.496][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:19.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:19.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:19.563][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-21 00:00:19.565][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.575][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.584][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.594][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:19.603][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-21 00:00:19.605][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-21 00:00:19.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:19.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:19.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:19.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:19.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:19.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:19.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:19.631][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-21 00:00:19.634][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-21 00:00:19.638][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:19.642][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-21 00:00:19.647][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-21 00:00:19.650][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 00:00:19.653][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-21 00:00:19.656][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 00:00:19.659][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-21 00:00:19.661][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-21 00:00:19.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:19.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:19.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:19.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:19.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:19.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:19.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:19.689][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.691][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.693][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:19.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:19.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.702][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.705][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.709][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.720][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:19.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.730][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:19.733][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:19.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.737][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.740][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:19.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:19.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.749][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:19.751][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:19.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.755][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.756][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:19.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:19.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:19.767][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:19.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.771][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:19.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:19.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.782][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:19.785][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:19.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.789][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:19.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:19.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.800][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.801][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.806][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.808][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:19.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.814][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.817][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.821][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.823][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:19.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.830][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:19.832][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:19.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.835][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:19.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:19.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.845][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.848][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.852][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.855][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:19.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.865][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:19.867][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:19.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.870][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.872][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:19.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:19.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.880][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:19.882][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:19.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.886][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:19.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:19.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.895][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.898][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.902][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:19.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.913][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.916][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.919][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:19.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.930][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.941][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.946][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:19.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:19.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.957][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.960][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.964][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.966][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:19.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:19.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:19.978][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:19.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.982][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.985][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:19.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:19.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:19.993][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:19.994][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:19.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:19.998][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.001][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-21 00:00:20.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:20.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.036][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:20.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:20.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.045][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:20.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:20.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.054][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 00:00:20.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 00:00:20.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.063][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:20.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:20.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.072][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:20.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:20.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.081][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-21 00:00:20.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-21 00:00:20.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:20.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:20.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:20.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:20.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 00:00:20.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 00:00:20.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:20.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:20.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:20.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:20.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:20.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-21 00:00:20.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.142][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:20.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:20.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.149][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:20.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:20.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:20.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-21 00:00:20.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:20.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:20.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.183][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:20.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:20.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.193][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:20.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-21 00:00:20.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.203][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:20.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:20.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.212][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:20.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:20.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.220][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:20.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-21 00:00:20.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.230][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.239][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.249][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.258][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:20.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:20.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:20.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:20.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.273][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 00:00:20.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 00:00:20.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:20.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:20.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:20.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:20.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 00:00:20.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 00:00:20.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.337][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:20.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:20.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.346][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:20.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:20.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.355][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:20.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 00:00:20.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:20.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:20.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:20.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:20.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:20.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 00:00:20.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:20.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:20.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:20.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:20.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.417][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:20.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:20.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.425][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:20.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:20.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.434][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:20.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:20.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.442][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:20.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-21 00:00:20.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.450][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:20.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:20.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.459][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:20.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:20.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.468][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:20.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-21 00:00:20.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.477][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:20.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:20.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.486][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:20.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:20.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.496][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 00:00:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 00:00:20.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.504][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:20.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.531][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.540][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-21 00:00:20.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 00:00:20.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:20.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:20.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:20.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:20.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.569][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:20.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:20.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.578][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:20.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:20.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 00:00:20.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 00:00:20.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.597][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:20.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:20.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.605][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:20.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:20.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.622][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:20.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-21 00:00:20.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 00:00:20.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 00:00:20.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:20.690][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-21 00:00:20.692][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.701][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.710][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.716][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:20.725][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-21 00:00:20.728][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:20.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:20.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:20.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:20.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:20.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:20.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:20.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:20.761][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-21 00:00:20.763][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-21 00:00:20.766][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-21 00:00:20.770][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:20.773][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:20.776][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:20.779][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:20.781][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:20.784][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:20.786][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:20.788][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:20.790][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:20.793][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-21 00:00:20.795][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-21 00:00:20.799][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.807][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.815][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.824][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.834][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.843][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.852][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:20.861][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-21 00:00:20.863][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-21 00:00:20.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:20.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:20.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:20.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:20.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:20.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:20.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:20.894][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.904][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.912][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.921][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.930][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.940][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:20.950][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:20.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:20.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:20.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:20.960][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-21 00:00:20.962][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-21 00:00:20.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:20.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:20.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:20.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:20.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:20.983][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:20.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 00:00:20.995][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-21 00:00:20.997][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-21 00:00:21.000][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-21 00:00:21.004][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:21.007][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:21.010][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-21 00:00:21.013][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-21 00:00:21.015][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-21 00:00:21.018][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-21 00:00:21.021][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-21 00:00:21.023][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-21 00:00:21.025][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-21 00:00:21.027][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-21 00:00:21.029][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-21 00:00:21.033][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.039][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.048][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.054][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.064][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.074][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.083][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:21.092][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-21 00:00:21.094][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-03-21 00:00:21.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:21.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:21.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:21.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:21.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:21.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:21.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 00:00:21.125][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.132][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.140][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.156][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.166][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 00:00:21.174][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-21 00:00:21.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-21 00:00:21.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 00:00:21.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 00:00:21.183][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-21 00:00:21.186][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-21 00:00:21.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 00:00:21.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:21.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:21.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:21.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:21.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:21.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 00:00:21.227][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 00:00:21.230][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-21 00:00:21.232][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-21 00:00:21.234][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 00:00:21.236][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 00:00:21.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 00:00:21.240][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 00:00:21.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 00:00:21.242][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 00:00:21.245][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
 19.682   0.952  22.921

CHECK results for biodbHmdb on merida1

Summary

Command output

Installation output

Tests output

Example timings