Multiple platform build/check report for BioC 3.20 - CHECK results for biodbHmdb on kjohnson1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4764
palomino8	Windows Server 2022 Datacenter	x64	4.4.3 (2025-02-28 ucrt) -- "Trophy Case"	4495
merida1	macOS 12.7.5 Monterey	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4522
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.3 (2025-02-28) -- "Trophy Case"	4449
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.3 (2025-02-28) -- "Trophy Case"	4420
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

CHECK results for biodbHmdb on kjohnson1

To the developers/maintainers of the biodbHmdb package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: biodbHmdb

Version: 1.12.0

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: 2025-03-25 12:32:11 -0400 (Tue, 25 Mar 2025)

EndedAt: 2025-03-25 12:33:07 -0400 (Tue, 25 Mar 2025)

EllapsedTime: 56.4 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: aarch64-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 Ventura 13.7.1
* 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 15.0.0 (clang-1500.0.40.1)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.20-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-arm64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.0.40.1)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c EntryMaker.cpp -o EntryMaker.o
EntryMaker.cpp:6:5: warning: field 'accession_tag' will be initialized after field 'closed' [-Wreorder-ctor]
    accession_tag("<accession>", "</accession>"),
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    closed(true)
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.3 (2025-02-28) -- "Trophy Case"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-03-25 12:32:48.946][biodb::testContext]
biodb.INFO [2025-03-25 12:32:48.950][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 12:32:48.951][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-03-25 12:32:48.952][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 12:32:48.954][biodb::testContext]
biodb.INFO [2025-03-25 12:32:48.958][biodb::testThat]
biodb.INFO [2025-03-25 12:32:48.959][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-03-25 12:32:48.960][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:48.961][biodb::testThat]
biodb.INFO [2025-03-25 12:32:49.113][biodb::testContext]
biodb.INFO [2025-03-25 12:32:49.115][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 12:32:49.116][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-25 12:32:49.116][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 12:32:49.117][biodb::testContext]
biodb.INFO [2025-03-25 12:32:49.130][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-25 12:32:49.132][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-25 12:32:49.142][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:49.143][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-25 12:32:49.144][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-25 12:32:49.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.148][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-25 12:32:49.180][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-25 12:32:49.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.183][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-25 12:32:49.184][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-25 12:32:49.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.188][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-25 12:32:49.188][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-25 12:32:49.189][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-25 12:32:49.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.192][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-25 12:32:49.193][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-25 12:32:49.194][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-25 12:32:49.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.197][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-25 12:32:49.198][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-25 12:32:49.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.202][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-25 12:32:49.204][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-25 12:32:49.205][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-25 12:32:49.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.208][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-25 12:32:49.209][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-25 12:32:49.210][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.214][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-25 12:32:49.215][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-25 12:32:49.216][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-25 12:32:49.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.220][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-25 12:32:49.221][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-25 12:32:49.222][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-25 12:32:49.222][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-25 12:32:49.223][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-25 12:32:49.224][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-25 12:32:49.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.227][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-25 12:32:49.228][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-25 12:32:49.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.231][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-25 12:32:49.232][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-25 12:32:49.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.235][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-25 12:32:49.236][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-25 12:32:49.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.240][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-25 12:32:49.240][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-25 12:32:49.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.243][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-25 12:32:49.244][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-25 12:32:49.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.247][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-25 12:32:49.248][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-25 12:32:49.266][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-25 12:32:49.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.270][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-25 12:32:49.271][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-25 12:32:49.272][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-25 12:32:49.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.278][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-25 12:32:49.316][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.332][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-25 12:32:49.333][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.334][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:49.335][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.336][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.337][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.338][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.339][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 12:32:49.340][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:49.341][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.342][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-25 12:32:49.343][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:49.344][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.344][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.345][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:49.345][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 12:32:49.345][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 12:32:49.345][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 12:32:49.345][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 12:32:49.346][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:49.347][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.348][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.349][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:49.349][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.350][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.359][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.360][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.361][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:49.362][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:49.362][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.363][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.364][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-25 12:32:49.366][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.367][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 12:32:49.368][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.369][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:49.370][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.371][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.371][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.372][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.373][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 12:32:49.374][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:49.375][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.376][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-25 12:32:49.376][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:49.377][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.378][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.379][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:49.379][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 12:32:49.379][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 12:32:49.379][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 12:32:49.379][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 12:32:49.380][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:49.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.382][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.383][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:49.383][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.384][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.385][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.386][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.386][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:49.387][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:49.388][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.389][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.390][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-25 12:32:49.392][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.393][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-25 12:32:49.393][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.394][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:49.395][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.396][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.397][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.398][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.398][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 12:32:49.399][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:49.400][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.401][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-25 12:32:49.402][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:49.403][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.403][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.404][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.405][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:49.406][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.406][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.407][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:49.408][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.409][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.410][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.410][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.411][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:49.412][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:49.413][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.413][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.414][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-25 12:32:49.416][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.417][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 12:32:49.419][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.420][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:49.421][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.422][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.424][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.425][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.426][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 12:32:49.427][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:49.428][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.428][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-25 12:32:49.429][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:49.430][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.431][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.432][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.433][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:49.433][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.434][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.435][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:49.436][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.437][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.438][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.440][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.441][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:49.442][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:49.442][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.444][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.449][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:49.450][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.458][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[2025-03-25 12:32:49.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.473][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[2025-03-25 12:32:49.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.492][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[2025-03-25 12:32:49.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.499][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[2025-03-25 12:32:49.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.531][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-25 12:32:49.536][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-25 12:32:49.538][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-25 12:32:49.539][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-25 12:32:49.540][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 12:32:49.541][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 12:32:49.542][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-25 12:32:49.543][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-25 12:32:49.545][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-25 12:32:49.546][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 12:32:49.547][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 12:32:49.548][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-25 12:32:49.549][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-25 12:32:49.551][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-25 12:32:49.552][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-25 12:32:49.553][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 12:32:49.554][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-25 12:32:49.556][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-25 12:32:49.557][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 12:32:49.558][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-25 12:32:49.559][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-25 12:32:49.561][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-25 12:32:49.562][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-25 12:32:49.563][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-25 12:32:49.565][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-25 12:32:49.567][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-25 12:32:49.568][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-25 12:32:49.569][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-25 12:32:49.570][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-25 12:32:49.572][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-25 12:32:49.573][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-25 12:32:49.574][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-25 12:32:49.575][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-25 12:32:49.577][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-25 12:32:49.578][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-25 12:32:49.579][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-25 12:32:49.580][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-25 12:32:49.581][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-25 12:32:49.583][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-25 12:32:49.584][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-25 12:32:49.585][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-25 12:32:49.586][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-25 12:32:49.587][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-25 12:32:49.589][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-25 12:32:49.590][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-25 12:32:49.591][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-25 12:32:49.592][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-25 12:32:49.593][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-25 12:32:49.595][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-25 12:32:49.597][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-25 12:32:49.599][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-25 12:32:49.600][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-25 12:32:49.601][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-25 12:32:49.602][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-25 12:32:49.604][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-25 12:32:49.605][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-25 12:32:49.606][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-25 12:32:49.607][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-25 12:32:49.609][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-25 12:32:49.610][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-25 12:32:49.611][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-25 12:32:49.612][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-25 12:32:49.613][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-25 12:32:49.615][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-25 12:32:49.616][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-25 12:32:49.617][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-25 12:32:49.618][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 12:32:49.619][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 12:32:49.621][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-25 12:32:49.622][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-25 12:32:49.623][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-25 12:32:49.626][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-25 12:32:49.628][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-25 12:32:49.630][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-25 12:32:49.631][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-25 12:32:49.632][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-25 12:32:49.634][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-25 12:32:49.635][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-25 12:32:49.636][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-25 12:32:49.637][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-25 12:32:49.639][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-25 12:32:49.640][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-25 12:32:49.641][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-25 12:32:49.647][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-25 12:32:49.649][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-25 12:32:49.653][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:49.654][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.655][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:49.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:49.804][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-25 12:32:49.819][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:49.821][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.822][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.823][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.824][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:49.825][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.826][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-25 12:32:49.827][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.828][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.829][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-25 12:32:49.829][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:49.830][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.831][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-25 12:32:49.832][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-25 12:32:49.833][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-25 12:32:49.834][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:49.835][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:49.835][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-25 12:32:49.835][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-25 12:32:49.836][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-25 12:32:49.837][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.838][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:49.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:49.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:49.840][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:49.841][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-25 12:32:49.841][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-25 12:32:49.842][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:49.843][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:49.844][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:49.844][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:49.851][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-25 12:32:49.852][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 12:32:49.854][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 12:32:49.855][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 12:32:49.857][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 12:32:49.887][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:49.888][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-25 12:32:49.893][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:49.898][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:49.903][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:49.904][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:49.906][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-25 12:32:49.907][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-25 12:32:49.908][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-25 12:32:49.908][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-25 12:32:49.909][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:49.910][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:49.910][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-25 12:32:49.911][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-25 12:32:49.912][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:49.939][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:49.941][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:49.942][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:49.943][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:49.945][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:49.946][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-25 12:32:49.958][biodb::testThat]
biodb.INFO [2025-03-25 12:32:49.959][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-03-25 12:32:49.960][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:49.961][biodb::testThat]
biodb.TRACE[2025-03-25 12:32:49.967][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-03-25 12:32:49.969][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-25 12:32:49.973][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-25 12:32:49.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:32:49.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:49.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:49.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:49.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:49.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:49.994][FUN] Functions in observer BiodbConfig: [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[2025-03-25 12:32:50.008][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.009][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.011][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.029][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.030][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.031][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.060][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.064][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.065][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.066][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.068][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.071][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.072][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.074][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.075][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.079][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.086][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.087][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.088][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.093][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.094][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.095][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.096][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.110][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.111][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.113][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.114][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.117][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.118][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.120][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.121][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.124][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.125][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.127][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.128][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.131][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.132][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.134][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.138][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:50.139][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:50.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.141][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:50.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:50.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.145][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.146][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.148][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.152][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.153][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.155][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.159][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.162][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.167][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.168][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.169][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.170][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.174][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:50.174][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:50.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.176][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.177][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:50.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:50.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.181][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:32:50.181][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.183][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.184][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:32:50.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.237][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.240][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.244][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.248][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.252][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.255][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:50.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.279][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.283][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.286][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.289][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.293][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.296][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:50.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.300][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.303][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.306][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.310][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.313][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.317][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.320][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.323][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.327][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:50.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:50.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:50.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:50.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:50.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:50.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.351][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.355][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.366][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.380][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.392][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.395][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.398][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.402][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.405][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.410][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.414][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:50.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:50.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.417][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:50.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:50.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:50.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:50.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.425][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:32:50.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.440][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:32:50.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:50.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.462][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.470][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.474][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.481][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.484][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.490][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:50.524][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-25 12:32:50.528][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 12:32:50.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 12:32:50.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.532][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 12:32:50.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 12:32:50.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.535][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-25 12:32:50.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-25 12:32:50.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.539][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-25 12:32:50.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-25 12:32:50.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.576][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.607][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.611][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.614][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:50.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.641][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.647][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.649][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:50.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:50.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.664][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.675][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.679][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.683][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.684][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.686][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.688][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:50.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.713][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.714][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.716][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:50.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.729][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.733][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.736][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.740][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.741][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.743][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.744][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:50.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.767][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.768][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.770][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:50.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.782][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.786][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.790][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.794][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.795][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.797][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.798][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:50.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.829][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.830][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.832][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.832][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:50.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:50.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.844][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.848][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.852][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.855][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.856][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.857][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.858][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:50.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:50.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.870][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.875][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.880][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.883][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.884][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.886][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.887][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:50.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:50.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.901][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.905][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.908][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.912][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.912][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.914][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.915][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:50.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.939][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.940][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.941][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:50.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.956][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.961][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.966][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.977][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.978][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.980][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.981][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:50.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.992][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:50.996][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:50.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:50.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.000][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.003][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.004][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.005][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.006][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.018][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.021][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.025][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.028][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.029][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.031][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.032][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.044][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.048][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.054][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.060][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.062][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.064][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.065][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.089][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.095][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.097][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.121][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.131][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.133][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.148][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.154][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.159][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.163][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.164][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.166][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.167][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.179][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.180][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.182][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.187][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.188][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.190][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.195][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.196][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.198][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.203][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.206][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.212][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.213][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.215][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.220][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.222][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.223][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.229][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.231][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.233][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.239][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.241][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.242][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.248][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.249][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.250][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.256][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:51.258][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:51.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.260][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.265][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.267][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.268][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.275][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.278][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.284][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.286][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.288][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.293][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.295][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.303][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.308][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.310][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.311][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.316][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.317][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.319][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.324][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.325][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.327][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.332][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.333][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.335][ef$get] fields variable is a list.
biodb.INFO [2025-03-25 12:32:51.343][biodb::testThat]
biodb.INFO [2025-03-25 12:32:51.344][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-25 12:32:51.345][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:51.346][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:51.361][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-25 12:32:51.370][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-25 12:32:51.375][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:51.377][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-25 12:32:51.379][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-25 12:32:51.380][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 12:32:51.384][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-25 12:32:51.385][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 12:32:51.409][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-25 12:32:51.410][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-25 12:32:51.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:32:51.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:51.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:51.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:51.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:51.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:51.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 12:32:51.426][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.427][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.429][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.433][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.434][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.436][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.437][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.441][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.441][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.443][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.444][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.455][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.456][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.458][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.459][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.463][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.465][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.470][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.471][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.472][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.477][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.478][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.479][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.480][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.484][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.485][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.486][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.487][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.491][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.492][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.493][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.494][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.498][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.499][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.501][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.502][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.506][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:51.507][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:51.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.509][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.510][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:51.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:51.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.514][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.514][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.516][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.521][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.522][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.523][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.528][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.529][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.530][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.535][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.536][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.537][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.542][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.543][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.545][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.546][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.549][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.550][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.552][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.553][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.557][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:32:51.557][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.559][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.560][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:32:51.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.573][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.583][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.586][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:51.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.590][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.593][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.596][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:51.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:51.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:51.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.619][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.622][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.626][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:51.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.629][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.632][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.635][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:51.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.639][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.642][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.645][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:51.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.649][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.652][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.656][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.659][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:51.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:51.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.663][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:51.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:51.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.666][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:51.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:51.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:51.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:51.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.691][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.701][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.704][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:51.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:51.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.727][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.730][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.734][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:51.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.737][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.740][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.743][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:51.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.747][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.753][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:51.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:51.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.756][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:32:51.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.769][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:32:51.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:51.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.780][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.783][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.790][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:51.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:51.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.793][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:51.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:51.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.803][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:51.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:51.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:51.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:51.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:51.833][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-25 12:32:51.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-25 12:32:51.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-25 12:32:51.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-25 12:32:51.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-25 12:32:51.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-25 12:32:51.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-25 12:32:51.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 12:32:51.855][biodb::testThat]
biodb.INFO [2025-03-25 12:32:51.856][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-25 12:32:51.857][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:51.858][biodb::testThat]
biodb.TRACE[2025-03-25 12:32:51.861][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.862][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.864][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:51.865][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-03-25 12:32:51.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.901][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:51.907][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-03-25 12:32:51.909][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-25 12:32:51.909][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-25 12:32:51.910][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-25 12:32:51.913][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:51.915][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:51.916][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:32:51.917][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:51.918][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:32:51.919][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:32:51.920][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:32:51.922][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:32:51.923][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:32:51.924][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-25 12:32:51.924][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-25 12:32:51.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:51.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:51.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:51.940][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-25 12:32:51.941][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-25 12:32:51.941][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-25 12:32:51.955][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.956][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.966][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:51.967][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-03-25 12:32:51.982][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.986][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:51.990][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:51.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:51.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:51.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:51.997][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[2025-03-25 12:32:52.049][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-25 12:32:52.051][private$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[2025-03-25 12:32:52.051][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-03-25 12:32:52.066][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.067][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.069][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:32:52.070][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.071][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:32:52.093][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:32:52.094][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:32:52.095][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:32:52.096][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:32:52.097][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-25 12:32:52.098][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-25 12:32:52.100][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:52.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:52.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.103][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:52.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:52.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.107][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:52.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:52.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.110][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:52.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:52.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:52.113][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-25 12:32:52.114][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-25 12:32:52.115][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-25 12:32:52.129][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.130][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.132][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:52.133][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-03-25 12:32:52.146][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.150][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.153][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:52.159][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-03-25 12:32:52.161][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-03-25 12:32:52.162][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-25 12:32:52.162][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-25 12:32:52.164][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.166][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.167][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:32:52.168][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.169][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:32:52.170][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:32:52.171][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:32:52.172][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:32:52.173][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:32:52.174][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-25 12:32:52.175][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-25 12:32:52.176][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.180][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.183][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.187][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:52.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:52.191][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-25 12:32:52.191][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-25 12:32:52.192][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-03-25 12:32:52.208][biodb::testThat]
biodb.INFO [2025-03-25 12:32:52.210][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-03-25 12:32:52.211][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:52.211][biodb::testThat]
biodb.TRACE[2025-03-25 12:32:52.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:52.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:52.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:52.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:52.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.237][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:52.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:52.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:52.253][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-25 12:32:52.254][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-25 12:32:52.255][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-25 12:32:52.257][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.259][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.260][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:32:52.262][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:52.263][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:32:52.264][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:32:52.265][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:32:52.266][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:32:52.267][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:32:52.267][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-25 12:32:52.268][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-25 12:32:52.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:52.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:52.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:52.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:52.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:52.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:52.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:52.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:52.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:52.284][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-25 12:32:52.285][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-03-25 12:32:52.302][biodb::testThat]
biodb.INFO [2025-03-25 12:32:52.303][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-03-25 12:32:52.304][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:52.305][biodb::testThat]
biodb.TRACE[2025-03-25 12:32:52.326][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 12:32:52.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 12:32:52.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.330][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 12:32:52.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 12:32:52.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.334][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-25 12:32:52.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-25 12:32:52.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.338][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-25 12:32:52.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-25 12:32:52.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.390][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 12:32:52.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 12:32:52.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.394][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-25 12:32:52.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-25 12:32:52.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-25 12:32:52.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-25 12:32:52.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:52.401][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-25 12:32:52.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-25 12:32:52.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:52.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 12:32:52.412][biodb::testThat]
biodb.INFO [2025-03-25 12:32:52.413][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-25 12:32:52.414][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:52.415][biodb::testThat]
biodb.INFO [2025-03-25 12:32:52.424][biodb::testThat]
biodb.INFO [2025-03-25 12:32:52.425][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-25 12:32:52.426][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:52.427][biodb::testThat]
biodb.INFO [2025-03-25 12:32:52.436][biodb::testThat]
biodb.INFO [2025-03-25 12:32:52.437][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-25 12:32:52.438][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:52.439][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:52.443][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-03-25 12:32:56.190][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-03-25 12:32:56.381][biodb::testThat]
biodb.INFO [2025-03-25 12:32:56.383][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-25 12:32:56.384][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:56.385][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:56.921][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-03-25 12:32:57.107][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:57.109][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:57.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.110][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.111][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:57.113][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:57.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.115][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.116][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:57.117][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:57.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.118][ef$get] fields variable is a list.
biodb.INFO [2025-03-25 12:32:57.120][biodb::testThat]
biodb.INFO [2025-03-25 12:32:57.121][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-03-25 12:32:57.123][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:57.124][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:57.126][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-25 12:32:57.185][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2025-03-25 12:32:57.187][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2025-03-25 12:32:57.188][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-03-25 12:32:57.189][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-03-25 12:32:57.190][private$doDownload] Downloading HMDB metabolite database at "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2025-03-25 12:32:57.192][cch$addFilesToCache] Moving files to cache [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2025-03-25 12:32:57.193][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-25 12:32:57.196][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-25 12:32:57.198][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-25 12:32:57.199][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2025-03-25 12:32:57.201][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker147366a2580f2marker".
biodb.TRACE[2025-03-25 12:32:57.203][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2025-03-25 12:32:57.204][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-25 12:32:57.206][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-25 12:32:57.208][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-03-25 12:32:57.208][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2025-03-25 12:32:57.210][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-25 12:32:57.211][private$doExtractDownload] Unzipping /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp...
biodb.DEBUG[2025-03-25 12:32:57.226][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2025-03-25 12:32:57.227][private$findXmlDatabaseFile] Found XML file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2025-03-25 12:32:57.228][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-03-25 12:32:57.230][private$doExtractDownload] Extract entries from XML file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2025-03-25 12:32:57.242][self$addFilesToCache] Moving files to cache [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2025-03-25 12:32:57.243][private$doAddFilesToCache] Destination files are [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-25 12:32:57.245][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-25 12:32:57.245][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-03-25 12:32:57.248][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker147364434c64fmarker".
biodb.TRACE[2025-03-25 12:32:57.249][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2025-03-25 12:32:57.250][self$addFilesToCache] Done adding files.
biodb.TRACE[2025-03-25 12:32:57.267][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-25 12:32:57.269][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 12:32:57.270][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 12:32:57.271][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 12:32:57.272][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.315][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-25 12:32:57.317][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-25 12:32:57.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:32:57.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:57.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:57.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 12:32:57.332][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:57.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:57.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.336][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:57.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:57.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:57.367][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-25 12:32:57.368][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-25 12:32:57.390][biodb::testThat]
biodb.INFO [2025-03-25 12:32:57.391][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-25 12:32:57.392][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:57.393][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:57.402][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-03-25 12:32:57.403][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-03-25 12:32:57.404][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-25 12:32:57.406][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.407][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-25 12:32:57.409][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-03-25 12:32:57.410][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-25 12:32:57.411][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-25 12:32:57.412][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 12:32:57.414][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.415][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-25 12:32:57.416][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-25 12:32:57.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:32:57.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:57.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:57.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 12:32:57.429][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:57.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:57.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.432][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:57.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:57.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:57.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:57.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:57.466][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-25 12:32:57.466][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-25 12:32:57.467][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-03-25 12:32:57.481][biodb::testThat]
biodb.INFO [2025-03-25 12:32:57.484][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-03-25 12:32:57.485][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:57.486][biodb::testThat]
biodb.INFO [2025-03-25 12:32:57.511][biodb::testThat]
biodb.INFO [2025-03-25 12:32:57.513][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-03-25 12:32:57.514][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:57.514][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:57.517][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.519][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.520][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:32:57.521][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.522][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:32:57.523][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:32:57.525][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:32:57.525][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:32:57.526][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-03-25 12:32:57.535][biodb::testThat]
biodb.INFO [2025-03-25 12:32:57.536][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-03-25 12:32:57.537][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:57.538][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:57.540][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.542][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.543][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:32:57.544][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:57.545][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:32:57.547][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:32:57.548][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:32:57.549][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:32:57.550][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-03-25 12:32:57.566][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:57.568][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:57.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.570][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.571][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:57.572][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:57.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.574][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:57.575][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:57.576][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:57.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:57.577][ef$get] fields variable is a list.
biodb.INFO [2025-03-25 12:32:57.578][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-25 12:32:57.579][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-25 12:32:57.587][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-25 12:32:57.588][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-25 12:32:57.589][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:57.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:57.591][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.592][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-25 12:32:57.597][biodb::testContext]
biodb.INFO [2025-03-25 12:32:57.598][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 12:32:57.599][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-03-25 12:32:57.600][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 12:32:57.601][biodb::testContext]
biodb.INFO [2025-03-25 12:32:57.606][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-25 12:32:57.607][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-25 12:32:57.612][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:57.613][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-25 12:32:57.614][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-25 12:32:57.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.617][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-25 12:32:57.618][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-25 12:32:57.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.620][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[2025-03-25 12:32:57.621][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-25 12:32:57.622][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-25 12:32:57.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.625][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-25 12:32:57.626][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-25 12:32:57.627][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-25 12:32:57.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.629][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[2025-03-25 12:32:57.630][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-25 12:32:57.631][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-25 12:32:57.631][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-25 12:32:57.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.634][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-25 12:32:57.635][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-25 12:32:57.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.638][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-25 12:32:57.639][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-25 12:32:57.640][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-25 12:32:57.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.643][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-25 12:32:57.644][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-25 12:32:57.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.647][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-25 12:32:57.647][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-25 12:32:57.648][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-25 12:32:57.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.651][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-25 12:32:57.652][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-25 12:32:57.653][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-25 12:32:57.654][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-25 12:32:57.655][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-25 12:32:57.656][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-25 12:32:57.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.659][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-25 12:32:57.659][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-25 12:32:57.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.663][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-25 12:32:57.663][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-25 12:32:57.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.674][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-25 12:32:57.675][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-25 12:32:57.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.679][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-25 12:32:57.679][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-25 12:32:57.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.682][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-25 12:32:57.683][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-25 12:32:57.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.686][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-25 12:32:57.687][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-25 12:32:57.705][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-25 12:32:57.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.709][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-25 12:32:57.709][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-25 12:32:57.710][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-25 12:32:57.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.714][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-25 12:32:57.715][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.716][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-25 12:32:57.717][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.718][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:57.719][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.720][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.721][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.722][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.723][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 12:32:57.723][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:57.724][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.726][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-25 12:32:57.727][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:57.727][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.728][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.729][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:57.729][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 12:32:57.729][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 12:32:57.729][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 12:32:57.729][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 12:32:57.730][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:57.731][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:57.732][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:57.733][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:57.734][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:57.735][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:57.736][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.737][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.738][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:57.738][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:57.739][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.740][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.741][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-25 12:32:57.743][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.744][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 12:32:57.745][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.745][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:57.746][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.747][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.748][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.749][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.750][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 12:32:57.750][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:57.751][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.752][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-25 12:32:57.753][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:57.754][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.754][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.755][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:57.755][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 12:32:57.755][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 12:32:57.755][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 12:32:57.755][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 12:32:57.756][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:57.757][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:57.758][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:57.759][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:57.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:57.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:57.761][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.762][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.763][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:57.763][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:57.764][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.765][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.766][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-25 12:32:57.768][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.769][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-25 12:32:57.770][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:57.771][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.772][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.773][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.774][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.775][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 12:32:57.775][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:57.776][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.777][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-25 12:32:57.778][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:57.779][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.780][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.787][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.788][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:57.790][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:57.791][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:57.791][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:57.792][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:57.793][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:57.794][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.795][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.795][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:57.796][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:57.797][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.798][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.799][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-25 12:32:57.801][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.802][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 12:32:57.802][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.803][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:57.804][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.805][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.806][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.807][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.807][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 12:32:57.808][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:57.809][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.810][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-25 12:32:57.811][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:57.812][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.813][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:57.813][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.814][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:57.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:57.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:57.817][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:57.818][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:57.818][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:57.819][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:57.820][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.821][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:57.821][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:57.822][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:57.823][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:57.824][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:57.825][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.888][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[2025-03-25 12:32:57.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:57.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:57.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:57.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:57.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:57.896][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-25 12:32:57.897][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-25 12:32:57.898][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-25 12:32:57.899][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-25 12:32:57.901][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 12:32:57.902][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 12:32:57.903][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-25 12:32:57.904][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-25 12:32:57.906][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-25 12:32:57.907][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 12:32:57.908][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 12:32:57.909][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-25 12:32:57.910][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-25 12:32:57.912][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-25 12:32:57.913][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-25 12:32:57.914][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 12:32:57.915][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-25 12:32:57.916][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-25 12:32:57.918][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 12:32:57.919][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-25 12:32:57.920][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-25 12:32:57.921][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-25 12:32:57.923][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-25 12:32:57.924][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-25 12:32:57.926][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-25 12:32:57.927][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-25 12:32:57.928][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-25 12:32:57.929][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-25 12:32:57.930][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-25 12:32:57.932][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-25 12:32:57.933][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-25 12:32:57.934][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-25 12:32:57.935][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-25 12:32:57.936][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-25 12:32:57.938][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-25 12:32:57.939][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-25 12:32:57.940][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-25 12:32:57.941][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-25 12:32:57.942][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-25 12:32:57.943][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-25 12:32:57.945][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-25 12:32:57.946][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-25 12:32:57.947][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-25 12:32:57.948][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-25 12:32:57.949][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-25 12:32:57.951][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-25 12:32:57.952][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-25 12:32:57.953][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-25 12:32:57.954][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-25 12:32:57.955][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-25 12:32:57.957][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-25 12:32:57.958][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-25 12:32:57.959][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-25 12:32:57.960][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-25 12:32:57.961][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-25 12:32:57.963][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-25 12:32:57.964][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-25 12:32:57.966][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-25 12:32:57.967][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-25 12:32:57.969][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-25 12:32:57.978][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-25 12:32:57.980][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-25 12:32:57.982][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-25 12:32:57.983][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-25 12:32:57.985][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-25 12:32:57.986][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-25 12:32:57.987][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 12:32:57.988][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 12:32:57.989][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-25 12:32:57.991][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-25 12:32:57.992][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-25 12:32:57.993][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-25 12:32:57.994][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-25 12:32:57.995][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-25 12:32:57.997][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-25 12:32:57.998][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-25 12:32:57.999][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-25 12:32:58.000][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-25 12:32:58.001][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-25 12:32:58.003][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-25 12:32:58.005][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-25 12:32:58.007][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-25 12:32:58.008][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-25 12:32:58.009][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-25 12:32:58.011][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-25 12:32:58.012][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:58.013][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.014][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.020][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[2025-03-25 12:32:58.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.045][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[2025-03-25 12:32:58.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.056][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[2025-03-25 12:32:58.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.062][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[2025-03-25 12:32:58.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.094][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[2025-03-25 12:32:58.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.106][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[2025-03-25 12:32:58.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.118][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-25 12:32:58.119][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:58.121][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.122][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.123][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.124][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:58.125][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.126][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-25 12:32:58.127][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.127][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.129][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-25 12:32:58.130][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:58.131][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.132][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-25 12:32:58.133][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-25 12:32:58.134][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-25 12:32:58.135][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.136][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:58.136][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-25 12:32:58.136][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-25 12:32:58.137][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-25 12:32:58.138][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.139][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.139][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:58.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.142][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.142][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-25 12:32:58.142][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-25 12:32:58.143][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:58.144][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:58.145][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.146][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.147][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-25 12:32:58.148][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 12:32:58.150][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 12:32:58.151][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 12:32:58.153][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 12:32:58.156][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:58.157][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-25 12:32:58.158][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:58.159][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:58.160][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:58.161][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:58.162][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-25 12:32:58.163][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-25 12:32:58.164][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-25 12:32:58.164][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-25 12:32:58.165][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:58.166][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:58.167][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-25 12:32:58.167][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-25 12:32:58.168][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:58.170][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:58.177][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:58.179][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:58.180][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:58.182][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:58.183][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-25 12:32:58.185][biodb::testThat]
biodb.INFO [2025-03-25 12:32:58.186][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-03-25 12:32:58.187][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:58.187][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:58.191][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:58.193][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:58.194][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:32:58.195][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:58.196][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:32:58.197][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:32:58.198][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:32:58.199][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:32:58.200][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:32:58.203][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-25 12:32:58.209][biodb::testThat]
biodb.INFO [2025-03-25 12:32:58.210][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-03-25 12:32:58.211][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:58.212][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:58.214][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-25 12:32:58.215][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-25 12:32:58.217][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:58.218][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-25 12:32:58.220][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-25 12:32:58.221][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 12:32:58.223][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-25 12:32:58.224][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 12:32:58.225][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-25 12:32:58.226][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-25 12:32:58.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:32:58.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.237][FUN] Functions in observer BiodbConfig: [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[2025-03-25 12:32:58.241][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.242][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.244][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.248][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.249][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.251][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.253][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.256][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.257][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.259][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.260][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.263][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.264][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.266][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.267][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.270][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.273][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.277][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.278][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.280][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.292][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.293][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.295][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.297][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.301][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.302][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.303][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.304][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.309][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.310][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.311][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.312][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.316][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.317][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.318][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.319][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.323][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:58.324][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:58.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.326][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.327][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:58.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:58.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.330][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:58.331][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:58.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.333][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:58.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:58.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.338][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.339][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.340][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.345][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.346][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.347][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.352][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.354][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.359][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:58.360][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:58.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.361][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.362][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:58.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:58.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.366][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:58.367][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:58.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.368][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.369][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:58.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:58.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.373][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:32:58.374][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:58.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.375][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.377][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:32:58.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:58.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.398][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.402][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.405][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:58.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.408][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.412][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.415][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:58.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:58.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:58.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.438][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.446][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:58.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.449][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.453][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.456][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:58.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.459][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:58.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:58.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.463][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:58.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:58.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.466][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:58.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:58.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.470][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:58.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:58.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.473][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:58.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:58.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.476][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:58.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:58.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.487][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:58.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:58.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:58.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:58.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:58.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:58.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.497][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:58.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:58.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.502][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:58.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:58.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:58.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:58.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.519][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.522][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.525][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:58.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:58.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.545][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.548][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.552][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.556][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:58.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.560][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.565][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.568][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:58.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.572][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:58.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:58.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.575][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:58.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:58.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.586][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:58.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:58.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.590][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:32:58.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.593][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.603][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:32:58.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:58.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.613][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.616][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.623][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:58.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:58.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.627][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:58.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:58.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.631][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:58.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:58.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.637][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:58.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:58.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:58.664][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-25 12:32:58.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:58.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:58.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:58.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:58.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-25 12:32:58.691][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-25 12:32:58.692][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-25 12:32:58.694][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-25 12:32:58.694][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-25 12:32:58.695][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:58.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:58.697][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.698][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-25 12:32:58.703][biodb::testContext]
biodb.INFO [2025-03-25 12:32:58.704][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 12:32:58.705][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-03-25 12:32:58.706][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-25 12:32:58.707][biodb::testContext]
biodb.INFO [2025-03-25 12:32:58.712][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-25 12:32:58.714][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-25 12:32:58.719][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:58.720][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-25 12:32:58.721][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-25 12:32:58.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.724][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-25 12:32:58.725][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-25 12:32:58.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.728][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-25 12:32:58.729][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-25 12:32:58.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.734][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-25 12:32:58.737][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-25 12:32:58.739][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-25 12:32:58.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.742][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-25 12:32:58.743][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-25 12:32:58.744][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-25 12:32:58.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.747][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-25 12:32:58.748][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-25 12:32:58.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.751][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-25 12:32:58.752][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-25 12:32:58.753][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-25 12:32:58.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.755][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[2025-03-25 12:32:58.756][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-25 12:32:58.757][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-25 12:32:58.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.760][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-25 12:32:58.760][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-25 12:32:58.761][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-25 12:32:58.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.764][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-25 12:32:58.765][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-25 12:32:58.766][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-25 12:32:58.767][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-25 12:32:58.768][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-25 12:32:58.769][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-25 12:32:58.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.771][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-25 12:32:58.772][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-25 12:32:58.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.775][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-25 12:32:58.776][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-25 12:32:58.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.779][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-25 12:32:58.780][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-25 12:32:58.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.783][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-25 12:32:58.784][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-25 12:32:58.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.787][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-25 12:32:58.796][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-25 12:32:58.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.801][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-25 12:32:58.802][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-25 12:32:58.821][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-25 12:32:58.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.827][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-25 12:32:58.828][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-25 12:32:58.829][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-25 12:32:58.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.832][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-25 12:32:58.834][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.835][self$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[2025-03-25 12:32:58.836][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.837][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:58.838][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.839][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.840][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.840][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.841][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 12:32:58.842][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:58.843][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.844][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-25 12:32:58.845][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:58.846][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.847][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.848][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:58.848][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 12:32:58.848][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 12:32:58.848][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 12:32:58.848][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 12:32:58.849][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:58.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.852][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:58.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.854][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.855][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.856][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:58.856][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:58.857][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.858][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.859][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-25 12:32:58.861][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.862][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 12:32:58.863][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.864][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:58.865][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.866][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.866][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.867][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.868][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 12:32:58.869][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:58.870][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.871][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-25 12:32:58.871][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:58.872][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.873][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.874][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:58.874][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-25 12:32:58.874][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-25 12:32:58.874][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-25 12:32:58.874][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-25 12:32:58.875][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:58.876][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.876][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.877][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:58.878][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.879][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.879][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.880][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.881][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:58.882][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:58.883][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.883][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.884][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-25 12:32:58.886][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.887][self$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[2025-03-25 12:32:58.888][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.890][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:58.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.892][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.893][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.893][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.894][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-25 12:32:58.895][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:58.896][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.897][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-25 12:32:58.898][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:58.899][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.900][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.900][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.901][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:58.902][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.903][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.904][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:58.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.906][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.907][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.908][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:58.915][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:58.917][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.918][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.919][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-25 12:32:58.921][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.922][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-25 12:32:58.923][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.924][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:58.925][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.926][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.928][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.928][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.929][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-25 12:32:58.930][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:58.931][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.932][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-25 12:32:58.933][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:58.934][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.935][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:58.936][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.937][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-25 12:32:58.938][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.939][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.939][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:58.940][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:58.941][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:58.942][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:58.943][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.943][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:58.944][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:58.945][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:58.946][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:58.947][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:58.948][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.959][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[2025-03-25 12:32:58.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.985][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[2025-03-25 12:32:58.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:58.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:58.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:58.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:58.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:58.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.014][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[2025-03-25 12:32:59.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.019][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-25 12:32:59.020][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-25 12:32:59.021][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-25 12:32:59.023][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-25 12:32:59.024][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-25 12:32:59.025][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 12:32:59.026][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-25 12:32:59.027][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-25 12:32:59.028][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-25 12:32:59.033][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 12:32:59.036][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 12:32:59.037][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-25 12:32:59.039][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-25 12:32:59.040][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-25 12:32:59.042][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-25 12:32:59.043][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 12:32:59.044][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-25 12:32:59.045][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-25 12:32:59.046][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-25 12:32:59.050][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-25 12:32:59.053][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-25 12:32:59.055][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-25 12:32:59.057][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-25 12:32:59.058][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-25 12:32:59.060][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-25 12:32:59.062][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-25 12:32:59.063][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-25 12:32:59.064][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-25 12:32:59.065][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-25 12:32:59.067][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-25 12:32:59.068][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-25 12:32:59.069][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-25 12:32:59.070][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-25 12:32:59.072][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-25 12:32:59.073][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-25 12:32:59.074][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-25 12:32:59.075][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-25 12:32:59.076][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-25 12:32:59.078][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-25 12:32:59.079][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-25 12:32:59.080][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-25 12:32:59.081][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-25 12:32:59.082][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-25 12:32:59.083][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-25 12:32:59.085][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-25 12:32:59.086][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-25 12:32:59.087][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-25 12:32:59.088][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-25 12:32:59.089][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-25 12:32:59.091][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-25 12:32:59.092][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-25 12:32:59.093][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-25 12:32:59.095][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-25 12:32:59.096][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-25 12:32:59.097][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-25 12:32:59.099][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-25 12:32:59.100][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-25 12:32:59.101][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-25 12:32:59.103][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-25 12:32:59.104][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-25 12:32:59.105][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-25 12:32:59.113][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-25 12:32:59.115][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-25 12:32:59.116][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-25 12:32:59.118][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-25 12:32:59.119][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-25 12:32:59.120][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-25 12:32:59.121][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-25 12:32:59.123][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-25 12:32:59.124][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-25 12:32:59.125][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-25 12:32:59.126][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-25 12:32:59.128][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-25 12:32:59.129][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-25 12:32:59.130][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-25 12:32:59.131][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-25 12:32:59.132][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-25 12:32:59.134][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-25 12:32:59.135][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-25 12:32:59.136][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-25 12:32:59.137][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-25 12:32:59.138][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-25 12:32:59.139][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-25 12:32:59.141][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-25 12:32:59.143][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-25 12:32:59.144][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-25 12:32:59.144][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.146][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.227][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[2025-03-25 12:32:59.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.244][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-25 12:32:59.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.257][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-25 12:32:59.259][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:59.261][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:59.262][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-25 12:32:59.263][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:59.264][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-25 12:32:59.266][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:59.267][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-25 12:32:59.267][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:59.268][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-25 12:32:59.269][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-25 12:32:59.270][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-25 12:32:59.271][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:59.272][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-25 12:32:59.273][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-25 12:32:59.274][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-25 12:32:59.275][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-25 12:32:59.277][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-25 12:32:59.277][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-25 12:32:59.277][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-25 12:32:59.278][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-25 12:32:59.279][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:59.281][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:59.282][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-25 12:32:59.283][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-25 12:32:59.283][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-25 12:32:59.284][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-25 12:32:59.285][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-25 12:32:59.285][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-25 12:32:59.286][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:59.287][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:59.287][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-25 12:32:59.288][self$setPropertyValue]
biodb.DEBUG[2025-03-25 12:32:59.289][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-25 12:32:59.291][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-25 12:32:59.292][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-25 12:32:59.294][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-25 12:32:59.295][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-25 12:32:59.298][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:59.299][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-25 12:32:59.301][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:59.302][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:59.303][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:59.304][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:59.305][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-25 12:32:59.306][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-25 12:32:59.307][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-25 12:32:59.307][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-25 12:32:59.314][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-25 12:32:59.316][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-25 12:32:59.317][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-25 12:32:59.318][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-25 12:32:59.319][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-25 12:32:59.321][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:59.322][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:59.323][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:59.324][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-25 12:32:59.326][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-25 12:32:59.326][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-25 12:32:59.328][biodb::testThat]
biodb.INFO [2025-03-25 12:32:59.329][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-03-25 12:32:59.330][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-25 12:32:59.331][biodb::testThat]
biodb.DEBUG[2025-03-25 12:32:59.333][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-25 12:32:59.334][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-25 12:32:59.335][private$doSearchForEntries] fields VALUES = and
biodb.INFO [2025-03-25 12:32:59.338][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2025-03-25 12:32:59.340][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-03-25 12:32:59.341][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-03-25 12:32:59.342][private$doDownload] Downloading HMDB metabolite database at "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2025-03-25 12:32:59.344][cch$addFilesToCache] Moving files to cache [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2025-03-25 12:32:59.345][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-25 12:32:59.347][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-25 12:32:59.348][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-25 12:32:59.349][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2025-03-25 12:32:59.351][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker1473646450928marker".
biodb.TRACE[2025-03-25 12:32:59.352][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2025-03-25 12:32:59.353][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-25 12:32:59.355][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-25 12:32:59.356][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-03-25 12:32:59.357][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2025-03-25 12:32:59.358][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-25 12:32:59.359][private$doExtractDownload] Unzipping /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp...
biodb.DEBUG[2025-03-25 12:32:59.364][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2025-03-25 12:32:59.365][private$findXmlDatabaseFile] Found XML file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2025-03-25 12:32:59.365][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-03-25 12:32:59.367][private$doExtractDownload] Extract entries from XML file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2025-03-25 12:32:59.379][self$addFilesToCache] Moving files to cache [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2025-03-25 12:32:59.380][private$doAddFilesToCache] Destination files are [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-25 12:32:59.382][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-25 12:32:59.383][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-03-25 12:32:59.385][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker147365e5c4522marker".
biodb.TRACE[2025-03-25 12:32:59.386][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2025-03-25 12:32:59.388][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-25 12:32:59.389][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:32:59.390][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:59.391][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:32:59.392][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:32:59.393][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:32:59.394][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:32:59.395][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:32:59.396][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-25 12:32:59.398][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-03-25 12:32:59.401][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-25 12:32:59.402][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-25 12:32:59.404][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:59.405][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-25 12:32:59.407][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-25 12:32:59.409][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 12:32:59.411][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-25 12:32:59.412][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 12:32:59.414][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-25 12:32:59.415][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-25 12:32:59.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:32:59.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.427][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 12:32:59.435][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.436][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.438][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.443][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.444][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.445][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.447][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.458][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.459][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.461][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.462][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.466][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.467][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.468][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.470][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.476][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.481][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.481][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.483][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.488][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.489][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.490][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.492][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.497][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.498][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.501][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.503][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.508][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.509][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.511][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.513][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.516][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.517][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.519][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.520][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.524][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:59.525][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:59.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.527][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.528][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:59.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:59.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.532][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:59.533][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:59.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.534][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.535][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:59.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:59.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.539][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.540][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.542][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.546][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.551][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.576][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.577][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.580][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.588][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.589][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.591][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.592][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.596][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:59.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:59.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.599][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:59.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:59.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.606][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:32:59.607][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:59.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.609][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.610][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:32:59.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:59.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.624][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.627][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.631][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.634][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.637][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.640][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:32:59.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:32:59.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:32:59.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.664][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.667][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:32:59.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.683][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.688][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.691][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:32:59.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.696][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:59.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:59.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.699][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:59.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:59.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.703][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:59.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:32:59.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.706][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.710][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.713][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:59.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:59.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:59.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:59.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.724][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:32:59.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:32:59.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:59.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:59.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.732][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:59.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:59.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:32:59.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:32:59.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.749][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.754][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.758][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:32:59.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:32:59.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.772][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.784][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.789][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.793][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.797][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.800][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:32:59.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.804][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.807][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.810][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:59.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:59.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.817][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:59.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:59.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.820][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:32:59.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:32:59.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.824][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:32:59.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.830][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.837][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:32:59.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:32:59.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.849][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:32:59.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:32:59.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.860][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:59.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:59.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.863][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:59.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:59.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.870][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:59.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:32:59.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:59.908][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-25 12:32:59.909][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.915][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.922][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.926][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:32:59.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:32:59.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:32:59.930][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-25 12:32:59.930][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-25 12:32:59.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:32:59.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:32:59.943][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-25 12:32:59.944][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-25 12:32:59.946][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:32:59.947][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-25 12:32:59.949][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-25 12:32:59.950][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-25 12:32:59.953][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-25 12:32:59.954][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-25 12:32:59.956][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-25 12:32:59.958][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-25 12:32:59.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:32:59.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:32:59.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:32:59.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:32:59.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:32:59.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:32:59.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 12:32:59.976][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.978][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.980][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:32:59.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:32:59.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.984][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.985][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.987][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.988][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:32:59.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.992][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.993][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.994][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.995][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:32:59.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:32:59.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:32:59.999][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.000][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.009][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.011][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.016][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.018][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.019][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.024][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.025][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.026][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.031][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.032][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.033][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.034][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.039][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.040][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.042][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.043][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.047][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.048][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.049][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.050][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.057][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.058][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.060][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.062][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.065][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:33:00.066][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:33:00.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.068][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.069][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:33:00.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:33:00.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.073][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:33:00.074][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:33:00.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.075][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:33:00.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:33:00.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.081][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.082][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.083][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.088][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.089][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.090][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.096][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.097][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.098][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.099][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.103][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.104][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.106][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.107][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:33:00.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:33:00.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.124][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.126][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:33:00.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:33:00.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.130][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:33:00.131][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:33:00.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.133][ef$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.134][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-25 12:33:00.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:33:00.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.148][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:33:00.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:33:00.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.153][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:33:00.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:33:00.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.156][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-25 12:33:00.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-25 12:33:00.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.159][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.163][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.166][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-25 12:33:00.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-25 12:33:00.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-25 12:33:00.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.190][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.194][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.197][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-25 12:33:00.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.200][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.204][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.207][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-25 12:33:00.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.211][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:33:00.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:33:00.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.224][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:33:00.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:33:00.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-25 12:33:00.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-25 12:33:00.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.232][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.236][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.240][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:33:00.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:33:00.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.247][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:33:00.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:33:00.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-25 12:33:00.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-25 12:33:00.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:33:00.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:33:00.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:33:00.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:33:00.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-25 12:33:00.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-25 12:33:00.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.273][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.276][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.280][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-25 12:33:00.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-25 12:33:00.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.293][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.303][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.307][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.317][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-25 12:33:00.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.324][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:33:00.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:33:00.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.328][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:33:00.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:33:00.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.332][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-25 12:33:00.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-25 12:33:00.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.335][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:33:00.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:33:00.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.338][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:33:00.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:33:00.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.343][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-25 12:33:00.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-25 12:33:00.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.348][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:33:00.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.363][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-25 12:33:00.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-25 12:33:00.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.377][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.380][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-25 12:33:00.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-25 12:33:00.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.384][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:33:00.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:33:00.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.387][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:33:00.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:33:00.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.394][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:33:00.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-25 12:33:00.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-25 12:33:00.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-25 12:33:00.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:33:00.436][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-25 12:33:00.437][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.442][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.446][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.449][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:33:00.453][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-25 12:33:00.454][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:33:00.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:33:00.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:33:00.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:33:00.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:33:00.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:33:00.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:33:00.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:33:00.471][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-25 12:33:00.472][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-25 12:33:00.472][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-25 12:33:00.474][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:33:00.475][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:33:00.477][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:33:00.478][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:33:00.479][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:33:00.480][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:33:00.481][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:33:00.482][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:33:00.483][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:33:00.484][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-25 12:33:00.484][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-25 12:33:00.486][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.490][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.494][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.500][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.504][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.507][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.511][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:33:00.514][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-25 12:33:00.515][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-25 12:33:00.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:33:00.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:33:00.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:33:00.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:33:00.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:33:00.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:33:00.526][FUN] Functions in observer BiodbConfig: [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[2025-03-25 12:33:00.528][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.531][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.542][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.548][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.552][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.555][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.559][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:33:00.562][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-25 12:33:00.563][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-25 12:33:00.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:33:00.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:33:00.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:33:00.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:33:00.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:33:00.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:33:00.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-25 12:33:00.580][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-25 12:33:00.582][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-25 12:33:00.583][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-25 12:33:00.585][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:33:00.586][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:33:00.588][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-25 12:33:00.589][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-25 12:33:00.590][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-25 12:33:00.591][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-25 12:33:00.593][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-25 12:33:00.595][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-25 12:33:00.596][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-25 12:33:00.597][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-25 12:33:00.598][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-25 12:33:00.600][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.604][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.608][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.614][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.619][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.623][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.628][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:33:00.632][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-25 12:33:00.633][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-03-25 12:33:00.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:33:00.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:33:00.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:33:00.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:33:00.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:33:00.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:33:00.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-25 12:33:00.645][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.649][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.652][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.664][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.676][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-25 12:33:00.681][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-25 12:33:00.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-25 12:33:00.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-25 12:33:00.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-25 12:33:00.685][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-25 12:33:00.685][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-25 12:33:00.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-25 12:33:00.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:33:00.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:33:00.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:33:00.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:33:00.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:33:00.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-25 12:33:00.704][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-25 12:33:00.705][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-25 12:33:00.706][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-25 12:33:00.707][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-25 12:33:00.708][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-25 12:33:00.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-25 12:33:00.709][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-25 12:33:00.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-25 12:33:00.711][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-25 12:33:00.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  9.090   0.628  14.283

CHECK results for biodbHmdb on kjohnson1

Summary

Command output

Installation output

Tests output

Example timings