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"	4670
palomino8	Windows Server 2022 Datacenter	x64	4.4.3 (2025-02-28 ucrt) -- "Trophy Case"	4355
merida1	macOS 12.7.5 Monterey	x86_64	4.4.3 (2025-02-28) -- "Trophy Case"	4446
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.3 (2025-02-28) -- "Trophy Case"	4439
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.3 (2025-02-28) -- "Trophy Case"	4306
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: 2025-03-07 13:18:06 -0500 (Fri, 07 Mar 2025)

EndedAt: 2025-03-07 13:19:21 -0500 (Fri, 07 Mar 2025)

EllapsedTime: 74.9 seconds

RetCode: 0

Status: WARNINGS

CheckDir: biodbHmdb.Rcheck

Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.12.0.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 [2025-03-07 13:18:44.084][biodb::testContext]
biodb.INFO [2025-03-07 13:18:44.089][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 13:18:44.090][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-03-07 13:18:44.091][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 13:18:44.092][biodb::testContext]
biodb.INFO [2025-03-07 13:18:44.094][biodb::testThat]
biodb.INFO [2025-03-07 13:18:44.095][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-03-07 13:18:44.096][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:44.097][biodb::testThat]
biodb.INFO [2025-03-07 13:18:44.243][biodb::testContext]
biodb.INFO [2025-03-07 13:18:44.245][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 13:18:44.246][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-07 13:18:44.247][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 13:18:44.248][biodb::testContext]
biodb.INFO [2025-03-07 13:18:44.263][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-07 13:18:44.266][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-07 13:18:44.275][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:18:44.276][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-07 13:18:44.277][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-07 13:18:44.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.281][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-07 13:18:44.308][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-07 13:18:44.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.312][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-07 13:18:44.313][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-07 13:18:44.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.316][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-07 13:18:44.317][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-07 13:18:44.318][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-07 13:18:44.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.321][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-07 13:18:44.322][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-07 13:18:44.323][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-07 13:18:44.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.326][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-07 13:18:44.327][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-07 13:18:44.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.329][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-07 13:18:44.330][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-07 13:18:44.331][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-07 13:18:44.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.334][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-07 13:18:44.335][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-07 13:18:44.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.338][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-07 13:18:44.339][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-07 13:18:44.339][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-07 13:18:44.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.342][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-07 13:18:44.343][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-07 13:18:44.344][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-07 13:18:44.345][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-07 13:18:44.345][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-07 13:18:44.346][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-07 13:18:44.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.349][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-07 13:18:44.350][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-07 13:18:44.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.353][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-07 13:18:44.354][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-07 13:18:44.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.357][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-07 13:18:44.358][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-07 13:18:44.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.361][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-07 13:18:44.362][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-07 13:18:44.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.365][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-07 13:18:44.366][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-07 13:18:44.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.369][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-07 13:18:44.369][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-07 13:18:44.388][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-07 13:18:44.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.393][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-07 13:18:44.394][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-07 13:18:44.395][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-07 13:18:44.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.403][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-07 13:18:44.447][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.463][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-07 13:18:44.464][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.465][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:18:44.466][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.467][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.468][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.469][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.470][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 13:18:44.471][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:18:44.471][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.472][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-07 13:18:44.473][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:18:44.474][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.475][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.475][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:18:44.475][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 13:18:44.475][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 13:18:44.475][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 13:18:44.475][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 13:18:44.476][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:18:44.477][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.478][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.479][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:18:44.480][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.480][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.489][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.490][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.491][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:18:44.492][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:18:44.493][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.494][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.495][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-07 13:18:44.497][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.498][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 13:18:44.499][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.500][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:18:44.501][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.502][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.503][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.504][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.504][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 13:18:44.505][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:18:44.506][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.507][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-07 13:18:44.508][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:18:44.509][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.509][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.510][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:18:44.510][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 13:18:44.510][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 13:18:44.510][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 13:18:44.510][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 13:18:44.511][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:18:44.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.514][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:18:44.515][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.515][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.516][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.517][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.518][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:18:44.519][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:18:44.519][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.520][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.521][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-07 13:18:44.523][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.524][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-07 13:18:44.525][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.526][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:18:44.527][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.528][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.530][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.530][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 13:18:44.531][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:18:44.532][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.533][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-07 13:18:44.534][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:18:44.535][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.535][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.536][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.537][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:18:44.538][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.539][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:18:44.540][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.541][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.542][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.543][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.543][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:18:44.544][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:18:44.545][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.546][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.547][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-07 13:18:44.548][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.549][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 13:18:44.550][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.551][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:18:44.552][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.552][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.553][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.554][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.555][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 13:18:44.556][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:18:44.557][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.557][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-07 13:18:44.558][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:18:44.559][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.560][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.561][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.562][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:18:44.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.564][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.565][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:18:44.565][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.566][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.567][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.568][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.569][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:18:44.570][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:18:44.570][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.571][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.576][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:18:44.577][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.634][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[2025-03-07 13:18:44.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.642][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[2025-03-07 13:18:44.649][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-07 13:18:44.655][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-07 13:18:44.656][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-07 13:18:44.658][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-07 13:18:44.659][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-07 13:18:44.660][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 13:18:44.661][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-07 13:18:44.662][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-07 13:18:44.664][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-07 13:18:44.665][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 13:18:44.666][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 13:18:44.668][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-07 13:18:44.669][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-07 13:18:44.670][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-07 13:18:44.672][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-07 13:18:44.674][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 13:18:44.676][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-07 13:18:44.678][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-07 13:18:44.679][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-07 13:18:44.681][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-07 13:18:44.682][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-07 13:18:44.683][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-07 13:18:44.685][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-07 13:18:44.686][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-07 13:18:44.687][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-07 13:18:44.688][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-07 13:18:44.690][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-07 13:18:44.691][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-07 13:18:44.692][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-07 13:18:44.693][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-07 13:18:44.694][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-07 13:18:44.696][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-07 13:18:44.697][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-07 13:18:44.698][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-07 13:18:44.699][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-07 13:18:44.700][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-07 13:18:44.702][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-07 13:18:44.703][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-07 13:18:44.705][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-07 13:18:44.706][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-07 13:18:44.707][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-07 13:18:44.709][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-07 13:18:44.710][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-07 13:18:44.711][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-07 13:18:44.712][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-07 13:18:44.714][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-07 13:18:44.715][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-07 13:18:44.718][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-07 13:18:44.720][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-07 13:18:44.722][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-07 13:18:44.723][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-07 13:18:44.725][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-07 13:18:44.727][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-07 13:18:44.728][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-07 13:18:44.729][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-07 13:18:44.731][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-07 13:18:44.733][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-07 13:18:44.734][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-07 13:18:44.735][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-07 13:18:44.736][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-07 13:18:44.738][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-07 13:18:44.739][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-07 13:18:44.740][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-07 13:18:44.741][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-07 13:18:44.742][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-07 13:18:44.744][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-07 13:18:44.745][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-07 13:18:44.746][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-07 13:18:44.747][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-07 13:18:44.748][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-07 13:18:44.750][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-07 13:18:44.751][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-07 13:18:44.753][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-07 13:18:44.755][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-07 13:18:44.757][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-07 13:18:44.758][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-07 13:18:44.760][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-07 13:18:44.763][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-07 13:18:44.765][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-07 13:18:44.766][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-07 13:18:44.768][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-07 13:18:44.770][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-07 13:18:44.771][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-07 13:18:44.778][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-07 13:18:44.781][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-07 13:18:44.785][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:18:44.786][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.788][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.800][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[2025-03-07 13:18:44.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.826][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[2025-03-07 13:18:44.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.884][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[2025-03-07 13:18:44.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:18:44.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:44.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:44.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:44.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:44.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:44.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:18:44.946][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-07 13:18:44.959][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:18:44.961][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.963][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.963][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.964][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:18:44.965][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.966][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-07 13:18:44.967][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.968][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.968][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-07 13:18:44.969][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:18:44.970][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.971][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-07 13:18:44.972][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-07 13:18:44.973][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-07 13:18:44.974][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-07 13:18:44.974][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:18:44.974][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-07 13:18:44.974][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-07 13:18:44.976][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-07 13:18:44.978][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.979][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.980][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:18:44.981][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:18:44.982][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:18:44.983][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:18:44.985][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 13:18:44.985][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-07 13:18:44.986][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:18:44.987][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:18:44.989][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-07 13:18:44.990][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:18:44.998][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-07 13:18:45.001][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 13:18:45.003][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 13:18:45.005][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 13:18:45.007][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 13:18:45.037][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:18:45.039][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-07 13:18:45.045][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:18:45.050][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 13:18:45.055][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:18:45.056][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:18:45.057][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-07 13:18:45.058][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-07 13:18:45.059][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 13:18:45.059][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-07 13:18:45.060][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:18:45.061][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:18:45.061][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-07 13:18:45.062][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-07 13:18:45.063][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:18:45.091][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 13:18:45.093][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:18:45.094][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:18:45.095][private$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[2025-03-07 13:18:45.096][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:18:45.097][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-07 13:18:45.108][biodb::testThat]
biodb.INFO [2025-03-07 13:18:45.109][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-03-07 13:18:45.110][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:45.111][biodb::testThat]
biodb.TRACE[2025-03-07 13:18:45.116][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[2025-03-07 13:18:45.119][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 13:18:45.123][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 13:18:45.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:18:45.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:45.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:45.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:45.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:45.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:45.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:18:45.159][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.160][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.163][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.182][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.183][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.185][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.212][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.219][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.221][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.223][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.225][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.229][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.230][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.231][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.232][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.237][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.238][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.243][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.244][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.245][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.250][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.250][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.252][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.253][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.267][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.268][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.269][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.271][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.274][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.275][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.277][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.278][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.281][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.282][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.284][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.285][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.288][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:45.289][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:45.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.291][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:45.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:45.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:45.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:45.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.300][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:45.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:45.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.308][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.309][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.311][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.318][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.319][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.321][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.328][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.333][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.339][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:45.341][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:45.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.344][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.345][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:45.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:45.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.350][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:45.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:45.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.353][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.354][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:45.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:45.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.358][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:18:45.359][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:45.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.360][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.362][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:18:45.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:45.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.414][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.418][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.421][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:45.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.428][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.433][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.438][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:45.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.474][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.479][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.484][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:45.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.489][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.494][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.498][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:45.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.503][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:45.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:45.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.507][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:45.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.511][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:45.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:45.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.516][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:45.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:45.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.520][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:45.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:45.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.526][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:45.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:45.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.531][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:45.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:45.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.535][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:45.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:45.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.541][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:45.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:45.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:45.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:45.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:45.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:45.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:45.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:45.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.566][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.569][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.580][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:45.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:45.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.596][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.602][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.606][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.610][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.613][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.616][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.620][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.623][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.626][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:45.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:45.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:45.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.633][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:45.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:45.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.637][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:18:45.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.657][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:18:45.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:45.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.678][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:45.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:45.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.696][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.699][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.706][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:45.735][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-07 13:18:45.738][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 13:18:45.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 13:18:45.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.742][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 13:18:45.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 13:18:45.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.745][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-07 13:18:45.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-07 13:18:45.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.750][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-07 13:18:45.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-07 13:18:45.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.787][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.820][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.823][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.826][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:45.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.853][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.855][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.857][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:45.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:45.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.876][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.890][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.895][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.899][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.900][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.903][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.905][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:45.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.930][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.931][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.932][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:45.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.945][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.949][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.952][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.956][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.957][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.958][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.959][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:45.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.982][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.983][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.985][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:45.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:45.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:45.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.001][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.008][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.015][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.019][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.021][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.024][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.026][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:46.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:46.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:46.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:46.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:46.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:46.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.069][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:46.070][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:46.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.073][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:46.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:46.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.090][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.095][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.099][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.104][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.106][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.108][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.109][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.125][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.131][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.143][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.144][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.147][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.148][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.163][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.167][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.170][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.174][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.175][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.176][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.177][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.201][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.202][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.204][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.217][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.240][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.241][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.242][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.244][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.263][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.267][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.271][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.275][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.276][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.277][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.278][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.291][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.297][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.302][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.307][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.308][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.310][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.311][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.323][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:46.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:46.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.327][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:46.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:46.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:46.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:46.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.333][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:46.334][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:46.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.340][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.341][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:46.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:46.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:46.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:46.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:46.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:46.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:46.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:46.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.373][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:46.374][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:46.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.376][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:46.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:46.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.399][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.409][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.423][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.427][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.431][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.437][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.438][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.441][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.442][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.458][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:46.460][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:46.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.461][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.467][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.468][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.469][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.474][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.476][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.477][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.482][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.483][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.485][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.490][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.491][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.492][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.498][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.500][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.503][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.510][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.512][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.514][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.521][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.523][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.525][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.532][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.534][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.535][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.541][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.544][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.549][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:46.550][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:46.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.552][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.557][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.558][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.559][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.565][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.566][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.567][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.575][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.585][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.592][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:46.593][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:46.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.595][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.600][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:46.601][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:46.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.603][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.608][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:46.609][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:46.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.611][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.616][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:46.617][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:46.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.619][ef$get] fields variable is a list.
biodb.INFO [2025-03-07 13:18:46.627][biodb::testThat]
biodb.INFO [2025-03-07 13:18:46.628][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-07 13:18:46.629][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:46.630][biodb::testThat]
biodb.DEBUG[2025-03-07 13:18:46.644][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-07 13:18:46.653][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 13:18:46.659][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:46.661][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 13:18:46.663][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-07 13:18:46.665][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-07 13:18:46.668][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-07 13:18:46.670][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 13:18:46.700][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 13:18:46.702][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 13:18:46.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:18:46.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:18:46.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:18:46.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:18:46.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:18:46.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:18:46.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:18:46.722][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:46.723][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:46.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.725][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:46.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:46.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.730][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:46.731][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:46.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.732][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.734][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:46.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:46.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.737][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.738][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.741][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.752][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.754][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.755][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.757][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.760][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.761][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.762][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.767][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.768][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.774][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.775][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.776][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.778][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:46.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.781][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:46.782][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:46.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.783][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.784][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:46.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:46.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.788][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.789][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.790][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.791][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.796][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.798][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.801][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.803][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.807][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.812][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.814][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.819][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:46.820][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:46.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.823][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.824][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:46.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:46.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.829][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.831][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.834][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.835][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:46.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.840][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.842][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.844][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:46.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.850][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:46.851][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:46.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.854][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.855][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:46.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:46.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.860][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.861][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.863][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.865][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.870][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:46.872][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:46.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.873][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.875][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:46.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:46.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.878][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:18:46.879][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.881][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.882][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:18:46.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:46.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:46.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:46.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:46.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:46.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:46.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.896][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.906][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.909][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:18:46.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.912][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.916][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.919][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:18:46.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:18:46.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:18:46.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.953][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.959][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.964][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:18:46.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.967][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.971][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.974][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:18:46.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.977][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.984][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:18:46.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.987][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.990][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.993][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:46.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:46.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:46.997][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:46.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:46.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:46.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.000][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.003][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:18:47.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:18:47.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:47.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:47.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.010][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:47.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:47.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:18:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:18:47.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:47.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:47.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.036][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:47.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:47.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.040][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:47.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:18:47.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:47.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:47.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:47.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:47.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:47.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:18:47.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.053][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.056][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.060][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.063][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:47.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.066][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:47.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:47.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.069][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:47.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:18:47.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.072][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.076][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.081][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.088][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:47.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:47.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.091][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:47.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:47.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.097][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:18:47.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:18:47.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.103][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:18:47.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.117][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:18:47.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:18:47.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.128][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.144][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:47.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:47.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.150][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:47.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:47.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:47.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:47.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.161][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:47.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:18:47.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:47.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:47.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:47.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:47.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:47.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:47.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:47.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:47.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:47.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:47.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:18:47.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:18:47.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.192][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-07 13:18:47.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-07 13:18:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-07 13:18:47.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-07 13:18:47.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-07 13:18:47.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-07 13:18:47.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-07 13:18:47.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-07 13:18:47.211][biodb::testThat]
biodb.INFO [2025-03-07 13:18:47.213][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-07 13:18:47.214][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:47.214][biodb::testThat]
biodb.TRACE[2025-03-07 13:18:47.217][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.218][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.220][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.222][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-03-07 13:18:47.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.270][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-03-07 13:18:47.271][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-07 13:18:47.272][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-07 13:18:47.273][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-07 13:18:47.274][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.276][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.277][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:18:47.278][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.279][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:18:47.280][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:18:47.283][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:18:47.285][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:18:47.286][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:18:47.286][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 13:18:47.287][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 13:18:47.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.296][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.308][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 13:18:47.309][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 13:18:47.310][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-07 13:18:47.323][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:47.324][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:47.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.333][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.335][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-03-07 13:18:47.347][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:47.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:47.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.351][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:47.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:47.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.355][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:47.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:47.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.361][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[2025-03-07 13:18:47.422][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-07 13:18:47.423][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-03-07 13:18:47.424][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-03-07 13:18:47.441][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.443][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.445][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:18:47.448][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.449][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:18:47.474][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:18:47.476][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:18:47.477][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:18:47.477][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:18:47.481][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 13:18:47.482][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 13:18:47.486][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:47.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:47.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:47.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:47.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.497][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:47.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:47.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.500][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:18:47.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:18:47.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.504][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 13:18:47.505][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 13:18:47.506][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-03-07 13:18:47.524][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.525][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.528][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.530][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-03-07 13:18:47.543][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.548][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.552][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.558][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-03-07 13:18:47.560][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-03-07 13:18:47.561][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-07 13:18:47.562][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-03-07 13:18:47.564][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.565][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.567][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:18:47.568][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.569][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:18:47.570][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:18:47.572][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:18:47.573][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:18:47.574][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:18:47.575][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 13:18:47.576][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 13:18:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.581][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.585][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.589][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:18:47.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.592][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 13:18:47.593][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 13:18:47.594][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-03-07 13:18:47.611][biodb::testThat]
biodb.INFO [2025-03-07 13:18:47.612][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-03-07 13:18:47.613][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:47.614][biodb::testThat]
biodb.TRACE[2025-03-07 13:18:47.632][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.671][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-03-07 13:18:47.673][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-07 13:18:47.674][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-03-07 13:18:47.676][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.677][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.679][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:18:47.680][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:18:47.681][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:18:47.682][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:18:47.683][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:18:47.684][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:18:47.685][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:18:47.686][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 13:18:47.687][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 13:18:47.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.693][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:18:47.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:18:47.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:18:47.704][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 13:18:47.705][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-03-07 13:18:47.722][biodb::testThat]
biodb.INFO [2025-03-07 13:18:47.724][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-03-07 13:18:47.725][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:47.727][biodb::testThat]
biodb.TRACE[2025-03-07 13:18:47.750][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 13:18:47.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 13:18:47.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.754][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 13:18:47.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 13:18:47.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.758][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-07 13:18:47.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-07 13:18:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-07 13:18:47.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-07 13:18:47.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.815][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 13:18:47.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 13:18:47.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.819][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-07 13:18:47.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-07 13:18:47.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.823][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-07 13:18:47.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-07 13:18:47.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:18:47.826][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-07 13:18:47.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-07 13:18:47.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:18:47.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-07 13:18:47.837][biodb::testThat]
biodb.INFO [2025-03-07 13:18:47.838][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-07 13:18:47.839][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:47.839][biodb::testThat]
biodb.INFO [2025-03-07 13:18:47.849][biodb::testThat]
biodb.INFO [2025-03-07 13:18:47.850][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-07 13:18:47.850][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:47.851][biodb::testThat]
biodb.INFO [2025-03-07 13:18:47.862][biodb::testThat]
biodb.INFO [2025-03-07 13:18:47.863][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-07 13:18:47.864][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:18:47.865][biodb::testThat]
biodb.DEBUG[2025-03-07 13:18:47.869][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-03-07 13:19:01.761][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-03-07 13:19:01.961][biodb::testThat]
biodb.INFO [2025-03-07 13:19:01.962][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-07 13:19:01.963][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:01.964][biodb::testThat]
biodb.DEBUG[2025-03-07 13:19:11.891][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-03-07 13:19:12.076][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:12.077][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:12.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.078][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.079][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:12.080][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:12.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.081][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:12.081][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:12.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.082][ef$get] fields variable is a list.
biodb.INFO [2025-03-07 13:19:12.083][biodb::testThat]
biodb.INFO [2025-03-07 13:19:12.083][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-03-07 13:19:12.084][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:12.084][biodb::testThat]
biodb.DEBUG[2025-03-07 13:19:12.086][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-07 13:19:12.126][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2025-03-07 13:19:12.128][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2025-03-07 13:19:12.128][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-03-07 13:19:12.129][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-03-07 13:19:12.129][private$doDownload] Downloading HMDB metabolite database at "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2025-03-07 13:19:12.130][cch$addFilesToCache] Moving files to cache [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2025-03-07 13:19:12.131][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-07 13:19:12.134][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-07 13:19:12.134][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-07 13:19:12.135][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2025-03-07 13:19:12.136][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker4aa03ab8f643marker".
biodb.TRACE[2025-03-07 13:19:12.136][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2025-03-07 13:19:12.137][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-07 13:19:12.137][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-07 13:19:12.138][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-03-07 13:19:12.138][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2025-03-07 13:19:12.139][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-07 13:19:12.139][private$doExtractDownload] Unzipping /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp...
biodb.DEBUG[2025-03-07 13:19:12.173][private$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[2025-03-07 13:19:12.174][private$findXmlDatabaseFile] Found XML file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2025-03-07 13:19:12.174][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-03-07 13:19:12.175][private$doExtractDownload] Extract entries from XML file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2025-03-07 13:19:12.182][self$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[2025-03-07 13:19:12.183][private$doAddFilesToCache] Destination files are [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-07 13:19:12.184][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-07 13:19:12.184][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-03-07 13:19:12.185][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker4aa0452fc6d3marker".
biodb.TRACE[2025-03-07 13:19:12.185][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2025-03-07 13:19:12.186][self$addFilesToCache] Done adding files.
biodb.TRACE[2025-03-07 13:19:12.195][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-07 13:19:12.196][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-07 13:19:12.197][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-07 13:19:12.197][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 13:19:12.198][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.233][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 13:19:12.234][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 13:19:12.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:12.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:19:12.242][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:12.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:12.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.243][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:12.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:12.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:12.263][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-07 13:19:12.264][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-07 13:19:12.282][biodb::testThat]
biodb.INFO [2025-03-07 13:19:12.283][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-07 13:19:12.284][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:12.285][biodb::testThat]
biodb.DEBUG[2025-03-07 13:19:12.294][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-03-07 13:19:12.295][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-03-07 13:19:12.296][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 13:19:12.298][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.300][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 13:19:12.302][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-03-07 13:19:12.303][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-07 13:19:12.304][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-07 13:19:12.306][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 13:19:12.307][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.308][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 13:19:12.309][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 13:19:12.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:12.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:19:12.323][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:12.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:12.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.327][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:12.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:12.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:12.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:12.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:12.359][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-03-07 13:19:12.360][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-07 13:19:12.361][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-03-07 13:19:12.376][biodb::testThat]
biodb.INFO [2025-03-07 13:19:12.377][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-03-07 13:19:12.378][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:12.379][biodb::testThat]
biodb.INFO [2025-03-07 13:19:12.400][biodb::testThat]
biodb.INFO [2025-03-07 13:19:12.401][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-03-07 13:19:12.402][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:12.402][biodb::testThat]
biodb.DEBUG[2025-03-07 13:19:12.405][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.406][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.408][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:19:12.409][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.410][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:19:12.411][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:19:12.412][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:19:12.413][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:19:12.414][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-03-07 13:19:12.423][biodb::testThat]
biodb.INFO [2025-03-07 13:19:12.424][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-03-07 13:19:12.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:12.426][biodb::testThat]
biodb.DEBUG[2025-03-07 13:19:12.429][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.430][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.432][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:19:12.433][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.434][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:19:12.435][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:19:12.437][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:19:12.438][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:19:12.439][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-03-07 13:19:12.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:12.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:12.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.461][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.462][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:12.463][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:12.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.464][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:12.465][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:12.466][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:12.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:12.467][ef$get] fields variable is a list.
biodb.INFO [2025-03-07 13:19:12.468][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-07 13:19:12.469][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-07 13:19:12.478][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-07 13:19:12.479][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-07 13:19:12.479][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.481][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.483][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-07 13:19:12.488][biodb::testContext]
biodb.INFO [2025-03-07 13:19:12.489][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 13:19:12.490][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-03-07 13:19:12.491][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 13:19:12.491][biodb::testContext]
biodb.INFO [2025-03-07 13:19:12.494][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-07 13:19:12.495][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-07 13:19:12.498][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:19:12.498][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-07 13:19:12.499][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-07 13:19:12.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.500][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-07 13:19:12.500][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-07 13:19:12.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.502][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-07 13:19:12.502][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-07 13:19:12.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.504][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-07 13:19:12.504][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-07 13:19:12.504][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-07 13:19:12.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.506][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-07 13:19:12.506][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-07 13:19:12.506][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-07 13:19:12.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.508][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-07 13:19:12.508][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-07 13:19:12.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.509][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-07 13:19:12.510][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-07 13:19:12.510][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-07 13:19:12.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.512][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-07 13:19:12.512][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-07 13:19:12.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.513][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-07 13:19:12.514][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-07 13:19:12.514][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-07 13:19:12.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.515][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-07 13:19:12.516][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-07 13:19:12.516][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-07 13:19:12.517][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-07 13:19:12.517][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-07 13:19:12.518][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-07 13:19:12.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.519][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-07 13:19:12.519][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-07 13:19:12.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.521][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-07 13:19:12.521][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-07 13:19:12.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.530][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-07 13:19:12.530][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-07 13:19:12.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.532][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-07 13:19:12.532][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-07 13:19:12.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.534][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-07 13:19:12.534][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-07 13:19:12.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.536][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-07 13:19:12.536][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-07 13:19:12.547][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-07 13:19:12.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.549][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-07 13:19:12.549][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-07 13:19:12.550][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-07 13:19:12.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.551][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-07 13:19:12.552][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.553][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-07 13:19:12.553][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.553][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:12.554][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.554][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.554][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.555][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.555][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 13:19:12.556][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:12.556][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.556][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-07 13:19:12.557][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:12.557][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.557][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.558][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:19:12.558][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 13:19:12.558][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 13:19:12.558][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 13:19:12.558][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 13:19:12.558][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:19:12.559][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.559][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:12.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.560][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.560][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.561][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.561][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:12.561][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:12.562][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.562][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.563][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-07 13:19:12.564][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.564][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 13:19:12.564][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.565][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:12.565][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.566][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.566][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.566][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.567][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 13:19:12.567][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:12.568][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.568][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-07 13:19:12.568][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:12.569][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.569][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.569][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:19:12.569][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 13:19:12.569][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 13:19:12.569][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 13:19:12.569][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 13:19:12.570][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:19:12.570][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.570][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.571][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:12.571][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.571][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.572][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.572][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.573][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:12.573][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:12.573][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.574][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.574][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-07 13:19:12.575][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.576][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-07 13:19:12.576][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.576][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:12.577][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.577][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.578][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.578][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.578][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 13:19:12.579][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:12.579][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.579][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-07 13:19:12.580][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:12.580][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.580][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.587][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.588][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:19:12.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.589][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:12.590][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.590][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.590][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.591][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.591][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:12.591][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:12.592][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.592][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.593][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-07 13:19:12.594][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.594][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 13:19:12.594][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.595][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:12.595][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.596][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.596][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.596][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.597][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 13:19:12.597][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:12.597][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.598][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-07 13:19:12.598][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:12.598][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.599][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.599][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.600][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:19:12.600][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.600][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.600][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:12.601][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.601][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.602][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.604][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.604][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:12.605][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:12.606][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.607][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.608][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:19:12.609][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.617][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[2025-03-07 13:19:12.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.620][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[2025-03-07 13:19:12.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.634][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[2025-03-07 13:19:12.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.646][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[2025-03-07 13:19:12.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.676][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[2025-03-07 13:19:12.677][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-07 13:19:12.678][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-07 13:19:12.680][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-07 13:19:12.681][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-07 13:19:12.682][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-07 13:19:12.683][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 13:19:12.685][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-07 13:19:12.686][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-07 13:19:12.688][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-07 13:19:12.689][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 13:19:12.691][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 13:19:12.692][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-07 13:19:12.693][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-07 13:19:12.694][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-07 13:19:12.696][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-07 13:19:12.697][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 13:19:12.698][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-07 13:19:12.699][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-07 13:19:12.700][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-07 13:19:12.702][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-07 13:19:12.703][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-07 13:19:12.704][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-07 13:19:12.705][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-07 13:19:12.707][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-07 13:19:12.708][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-07 13:19:12.710][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-07 13:19:12.711][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-07 13:19:12.713][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-07 13:19:12.714][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-07 13:19:12.715][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-07 13:19:12.717][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-07 13:19:12.718][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-07 13:19:12.719][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-07 13:19:12.720][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-07 13:19:12.722][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-07 13:19:12.723][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-07 13:19:12.724][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-07 13:19:12.725][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-07 13:19:12.727][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-07 13:19:12.728][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-07 13:19:12.730][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-07 13:19:12.731][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-07 13:19:12.732][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-07 13:19:12.733][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-07 13:19:12.735][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-07 13:19:12.736][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-07 13:19:12.738][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-07 13:19:12.739][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-07 13:19:12.740][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-07 13:19:12.741][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-07 13:19:12.742][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-07 13:19:12.744][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-07 13:19:12.745][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-07 13:19:12.746][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-07 13:19:12.747][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-07 13:19:12.749][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-07 13:19:12.750][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-07 13:19:12.752][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-07 13:19:12.754][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-07 13:19:12.755][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-07 13:19:12.764][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-07 13:19:12.766][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-07 13:19:12.767][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-07 13:19:12.768][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-07 13:19:12.770][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-07 13:19:12.772][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-07 13:19:12.773][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-07 13:19:12.774][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-07 13:19:12.775][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-07 13:19:12.777][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-07 13:19:12.778][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-07 13:19:12.779][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-07 13:19:12.780][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-07 13:19:12.782][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-07 13:19:12.783][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-07 13:19:12.784][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-07 13:19:12.785][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-07 13:19:12.787][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-07 13:19:12.788][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-07 13:19:12.790][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-07 13:19:12.791][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-07 13:19:12.792][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-07 13:19:12.793][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-07 13:19:12.799][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-07 13:19:12.801][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-07 13:19:12.802][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:19:12.803][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.805][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.826][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[2025-03-07 13:19:12.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.831][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[2025-03-07 13:19:12.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.836][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[2025-03-07 13:19:12.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.854][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[2025-03-07 13:19:12.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.888][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[2025-03-07 13:19:12.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:12.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:12.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:12.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:12.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:12.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:12.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:12.907][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-07 13:19:12.908][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:19:12.910][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.911][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.912][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.913][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:12.914][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.914][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-07 13:19:12.915][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.916][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.917][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-07 13:19:12.918][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:12.918][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.919][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-07 13:19:12.921][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-07 13:19:12.922][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-07 13:19:12.924][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:12.925][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:19:12.925][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-07 13:19:12.925][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-07 13:19:12.926][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-07 13:19:12.927][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.928][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.929][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:12.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:12.931][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:12.932][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:12.933][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 13:19:12.933][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-07 13:19:12.934][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:12.935][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:12.936][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:12.937][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:12.938][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-07 13:19:12.939][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 13:19:12.941][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 13:19:12.942][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 13:19:12.944][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 13:19:12.947][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:19:12.948][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-07 13:19:12.949][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:19:12.950][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 13:19:12.951][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:12.952][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:12.953][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-07 13:19:12.954][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-07 13:19:12.955][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 13:19:12.955][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-07 13:19:12.956][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:12.963][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:12.965][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-07 13:19:12.967][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-07 13:19:12.968][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:19:12.970][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 13:19:12.971][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:12.972][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:12.973][private$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[2025-03-07 13:19:12.974][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:12.975][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-07 13:19:12.976][biodb::testThat]
biodb.INFO [2025-03-07 13:19:12.977][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-03-07 13:19:12.978][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:12.979][biodb::testThat]
biodb.DEBUG[2025-03-07 13:19:12.984][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.985][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.986][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:19:12.988][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:12.988][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:19:12.990][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:19:12.991][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:19:12.992][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:19:12.992][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:19:12.996][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-07 13:19:13.001][biodb::testThat]
biodb.INFO [2025-03-07 13:19:13.002][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-03-07 13:19:13.003][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:13.004][biodb::testThat]
biodb.DEBUG[2025-03-07 13:19:13.017][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-07 13:19:13.018][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 13:19:13.021][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:13.023][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 13:19:13.025][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-07 13:19:13.026][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-07 13:19:13.028][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-07 13:19:13.029][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 13:19:13.030][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 13:19:13.031][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 13:19:13.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:13.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:19:13.045][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.047][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.049][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.054][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.055][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.057][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.058][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.061][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.062][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.064][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.065][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.069][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.069][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.079][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.080][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.084][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.085][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.087][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.091][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.092][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.093][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.098][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.099][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.100][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.101][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.105][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.106][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.107][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.108][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.112][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.113][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.114][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.115][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.119][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.120][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.121][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.123][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.126][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:13.127][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:13.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.128][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:13.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:13.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.133][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:13.134][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:13.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.135][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:13.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:13.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.140][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.141][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.142][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.147][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.148][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.149][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.154][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.155][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.157][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.161][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:13.162][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:13.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.164][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:13.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:13.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.177][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:13.179][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:13.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.181][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:13.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:13.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.186][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:19:13.187][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:13.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.189][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.190][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:19:13.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:13.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.205][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.208][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.211][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:13.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.215][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.219][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.223][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:13.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:13.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:13.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.248][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.252][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.255][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:13.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.259][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.262][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.265][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:13.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.269][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:13.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:13.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.279][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:13.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:13.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.283][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:13.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:13.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.286][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:13.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:13.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.290][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:13.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:13.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.295][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:13.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:13.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.298][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:13.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:13.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:13.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:13.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.305][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:13.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:13.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:13.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:13.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:13.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:13.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:13.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:13.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.328][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.331][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.335][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:13.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:13.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.356][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.359][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.363][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.366][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:13.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.377][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.381][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.385][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:13.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:13.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:13.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.392][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:13.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:13.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.395][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:13.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:13.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.400][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:19:13.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.407][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.413][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:19:13.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:13.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.421][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.425][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.431][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:13.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:13.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.436][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:13.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:13.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.440][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:13.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:13.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.446][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:13.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:13.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:13.477][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-07 13:19:13.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:13.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:13.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:13.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:13.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-07 13:19:13.497][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-07 13:19:13.498][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-07 13:19:13.499][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-07 13:19:13.500][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-07 13:19:13.501][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.503][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.504][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-07 13:19:13.510][biodb::testContext]
biodb.INFO [2025-03-07 13:19:13.511][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 13:19:13.512][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-03-07 13:19:13.513][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-07 13:19:13.513][biodb::testContext]
biodb.INFO [2025-03-07 13:19:13.518][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-07 13:19:13.519][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-07 13:19:13.524][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:19:13.525][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-07 13:19:13.526][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-07 13:19:13.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.529][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-07 13:19:13.530][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-07 13:19:13.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.533][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-07 13:19:13.534][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-07 13:19:13.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.537][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-07 13:19:13.538][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-07 13:19:13.538][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-07 13:19:13.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.541][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-07 13:19:13.542][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-07 13:19:13.543][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-07 13:19:13.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.546][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-07 13:19:13.547][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-07 13:19:13.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.550][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-07 13:19:13.550][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-07 13:19:13.551][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-07 13:19:13.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.554][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-07 13:19:13.555][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-07 13:19:13.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.558][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-07 13:19:13.559][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-07 13:19:13.561][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-07 13:19:13.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.564][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-07 13:19:13.565][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-07 13:19:13.566][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-07 13:19:13.567][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-07 13:19:13.568][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-07 13:19:13.569][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-07 13:19:13.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.572][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-07 13:19:13.580][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-07 13:19:13.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.583][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-07 13:19:13.584][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-07 13:19:13.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.587][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-07 13:19:13.588][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-07 13:19:13.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.591][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-07 13:19:13.591][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-07 13:19:13.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.594][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-07 13:19:13.595][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-07 13:19:13.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.598][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-07 13:19:13.599][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-07 13:19:13.614][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-07 13:19:13.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.618][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-07 13:19:13.618][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-07 13:19:13.619][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-07 13:19:13.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.622][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-07 13:19:13.624][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.625][self$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[2025-03-07 13:19:13.626][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.627][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:13.628][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.628][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.629][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.630][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.631][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 13:19:13.632][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:13.632][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.633][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-07 13:19:13.634][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:13.635][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.636][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.636][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:19:13.636][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 13:19:13.636][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 13:19:13.636][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 13:19:13.636][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 13:19:13.637][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:19:13.638][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:13.639][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:13.639][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:13.640][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:13.641][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:13.642][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.643][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.643][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:13.644][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:13.645][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.646][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.647][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-07 13:19:13.648][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.649][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 13:19:13.650][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.651][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:13.651][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.652][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.653][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.654][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.655][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 13:19:13.655][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:13.656][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.657][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-07 13:19:13.659][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:13.660][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.660][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.661][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:19:13.661][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-07 13:19:13.661][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-07 13:19:13.661][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-07 13:19:13.661][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-07 13:19:13.662][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:19:13.663][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:13.664][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:13.664][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:13.665][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:13.666][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:13.667][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.668][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.668][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:13.669][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:13.670][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.670][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.671][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-07 13:19:13.673][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.673][self$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[2025-03-07 13:19:13.674][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.675][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:13.675][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.682][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.683][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.685][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.685][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-07 13:19:13.686][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:13.687][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.688][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-07 13:19:13.689][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:13.690][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.690][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.691][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.692][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:19:13.693][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:13.693][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:13.694][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:13.695][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:13.696][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:13.696][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.697][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.698][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:13.699][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:13.699][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.700][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.701][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-07 13:19:13.703][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.704][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-07 13:19:13.705][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.706][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:13.706][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.707][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.708][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.708][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.709][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-07 13:19:13.710][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:13.711][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.711][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-07 13:19:13.712][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:13.713][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.714][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:13.714][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.715][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-07 13:19:13.716][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:13.717][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:13.717][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:13.718][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:13.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:13.720][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:13.720][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.721][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:13.722][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:13.723][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:13.723][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:13.725][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:19:13.725][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.747][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[2025-03-07 13:19:13.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.750][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[2025-03-07 13:19:13.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.765][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[2025-03-07 13:19:13.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.780][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[2025-03-07 13:19:13.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.804][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-07 13:19:13.806][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-07 13:19:13.807][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-07 13:19:13.808][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-07 13:19:13.810][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-07 13:19:13.811][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 13:19:13.812][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-07 13:19:13.813][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-07 13:19:13.815][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-07 13:19:13.816][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 13:19:13.817][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 13:19:13.818][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-07 13:19:13.820][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-07 13:19:13.821][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-07 13:19:13.823][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-07 13:19:13.824][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 13:19:13.825][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-07 13:19:13.827][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-07 13:19:13.828][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-07 13:19:13.829][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-07 13:19:13.830][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-07 13:19:13.831][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-07 13:19:13.833][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-07 13:19:13.834][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-07 13:19:13.835][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-07 13:19:13.836][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-07 13:19:13.837][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-07 13:19:13.839][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-07 13:19:13.841][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-07 13:19:13.842][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-07 13:19:13.844][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-07 13:19:13.846][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-07 13:19:13.847][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-07 13:19:13.849][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-07 13:19:13.850][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-07 13:19:13.852][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-07 13:19:13.853][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-07 13:19:13.855][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-07 13:19:13.856][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-07 13:19:13.858][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-07 13:19:13.859][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-07 13:19:13.861][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-07 13:19:13.863][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-07 13:19:13.864][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-07 13:19:13.866][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-07 13:19:13.867][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-07 13:19:13.869][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-07 13:19:13.870][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-07 13:19:13.878][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-07 13:19:13.880][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-07 13:19:13.881][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-07 13:19:13.883][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-07 13:19:13.884][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-07 13:19:13.885][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-07 13:19:13.886][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-07 13:19:13.887][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-07 13:19:13.889][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-07 13:19:13.890][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-07 13:19:13.891][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-07 13:19:13.892][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-07 13:19:13.893][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-07 13:19:13.894][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-07 13:19:13.896][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-07 13:19:13.897][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-07 13:19:13.898][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-07 13:19:13.900][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-07 13:19:13.901][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-07 13:19:13.903][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-07 13:19:13.904][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-07 13:19:13.906][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-07 13:19:13.907][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-07 13:19:13.909][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-07 13:19:13.911][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-07 13:19:13.912][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-07 13:19:13.914][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-07 13:19:13.915][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-07 13:19:13.917][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-07 13:19:13.918][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-07 13:19:13.920][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-07 13:19:13.921][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-07 13:19:13.923][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-07 13:19:13.924][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-07 13:19:13.925][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-07 13:19:13.927][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-07 13:19:13.929][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-07 13:19:13.930][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-07 13:19:13.931][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.933][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.959][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[2025-03-07 13:19:13.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.981][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[2025-03-07 13:19:13.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.988][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[2025-03-07 13:19:13.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:13.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:13.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:13.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:13.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:13.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:13.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:13.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:14.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:14.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:14.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:14.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:14.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:14.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.014][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[2025-03-07 13:19:14.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:14.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:14.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:14.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:14.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-07 13:19:14.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:14.032][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-03-07 13:19:14.033][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:19:14.035][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:14.036][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-07 13:19:14.037][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:14.038][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-07 13:19:14.039][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:14.040][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-03-07 13:19:14.041][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:14.041][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-07 13:19:14.042][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-07 13:19:14.043][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-07 13:19:14.044][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:14.045][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-03-07 13:19:14.045][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-03-07 13:19:14.046][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-03-07 13:19:14.047][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-07 13:19:14.048][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-07 13:19:14.048][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-03-07 13:19:14.048][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-03-07 13:19:14.049][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-07 13:19:14.050][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:14.051][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:14.051][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-07 13:19:14.052][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-07 13:19:14.053][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-07 13:19:14.054][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-07 13:19:14.055][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 13:19:14.055][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-03-07 13:19:14.055][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:14.056][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:14.057][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-07 13:19:14.058][self$setPropertyValue]
biodb.DEBUG[2025-03-07 13:19:14.059][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-03-07 13:19:14.066][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-07 13:19:14.068][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-07 13:19:14.070][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-07 13:19:14.072][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-07 13:19:14.075][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:19:14.076][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-03-07 13:19:14.078][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:19:14.079][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 13:19:14.080][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:14.081][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:14.083][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-03-07 13:19:14.083][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-03-07 13:19:14.085][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-03-07 13:19:14.085][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-03-07 13:19:14.086][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-07 13:19:14.086][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-07 13:19:14.087][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-03-07 13:19:14.088][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-03-07 13:19:14.089][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-03-07 13:19:14.091][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 13:19:14.092][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:14.094][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:14.095][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-03-07 13:19:14.096][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-07 13:19:14.097][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-03-07 13:19:14.099][biodb::testThat]
biodb.INFO [2025-03-07 13:19:14.100][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-03-07 13:19:14.101][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-07 13:19:14.102][biodb::testThat]
biodb.DEBUG[2025-03-07 13:19:14.104][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-07 13:19:14.105][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-07 13:19:14.106][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-03-07 13:19:14.109][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:14.110][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:14.111][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:19:14.113][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:14.114][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:19:14.115][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:19:14.116][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:19:14.117][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:19:14.117][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:19:14.118][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 13:19:14.119][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-03-07 13:19:14.121][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-03-07 13:19:14.122][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-03-07 13:19:14.123][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:14.124][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-03-07 13:19:14.126][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-03-07 13:19:14.127][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-07 13:19:14.129][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-03-07 13:19:14.131][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 13:19:14.132][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 13:19:14.133][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 13:19:14.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:14.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:19:14.149][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.151][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.153][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.160][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.161][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.162][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.163][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.167][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.168][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.169][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.170][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.182][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.183][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.186][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.187][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.196][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.202][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.204][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.205][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.210][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.211][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.213][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.214][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.218][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.219][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.220][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.222][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.225][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.226][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.227][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.229][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.232][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.233][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.235][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.239][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.240][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.242][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.243][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.247][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:14.248][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:14.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.250][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.251][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:14.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:14.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.255][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.256][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.257][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.263][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.264][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.265][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.270][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.271][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.273][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.294][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.296][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.298][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.300][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.305][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:14.306][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:14.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.308][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:14.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:14.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.313][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:19:14.313][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.315][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.316][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:19:14.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.330][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.334][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.337][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.341][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.345][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.348][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.372][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.375][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.378][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.383][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.386][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.398][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.403][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.408][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.411][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.415][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.418][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.421][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.428][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.431][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.434][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:14.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:14.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:14.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:14.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:14.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:14.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.444][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.456][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.460][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.463][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.486][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.490][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.502][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.507][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.510][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.515][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.519][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.523][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:14.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:14.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.527][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:14.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:14.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.530][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:14.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:14.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.534][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:19:14.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.542][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.549][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:19:14.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.553][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.571][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:14.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:14.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.574][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:14.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:14.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.581][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:14.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:14.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:14.615][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-03-07 13:19:14.616][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.620][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.623][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.626][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:14.629][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 13:19:14.630][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 13:19:14.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:14.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:14.643][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-03-07 13:19:14.644][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2025-03-07 13:19:14.646][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2025-03-07 13:19:14.648][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-03-07 13:19:14.649][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-03-07 13:19:14.650][private$doDownload] Downloading HMDB metabolite database at "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2025-03-07 13:19:14.651][cch$addFilesToCache] Moving files to cache [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2025-03-07 13:19:14.653][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-07 13:19:14.655][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-07 13:19:14.657][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-07 13:19:14.658][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2025-03-07 13:19:14.660][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker4aa021338575marker".
biodb.TRACE[2025-03-07 13:19:14.661][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2025-03-07 13:19:14.662][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-07 13:19:14.663][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-03-07 13:19:14.664][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-03-07 13:19:14.665][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2025-03-07 13:19:14.667][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-03-07 13:19:14.668][private$doExtractDownload] Unzipping /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp...
biodb.DEBUG[2025-03-07 13:19:14.673][private$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[2025-03-07 13:19:14.674][private$findXmlDatabaseFile] Found XML file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2025-03-07 13:19:14.675][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-03-07 13:19:14.676][private$doExtractDownload] Extract entries from XML file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2025-03-07 13:19:14.688][self$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[2025-03-07 13:19:14.689][private$doAddFilesToCache] Destination files are [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-07 13:19:14.690][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-03-07 13:19:14.691][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-03-07 13:19:14.694][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker4aa03d7ed55amarker".
biodb.TRACE[2025-03-07 13:19:14.695][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2025-03-07 13:19:14.696][self$addFilesToCache] Done adding files.
biodb.TRACE[2025-03-07 13:19:14.698][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-03-07 13:19:14.699][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-07 13:19:14.701][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-03-07 13:19:14.702][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-03-07 13:19:14.703][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-03-07 13:19:14.705][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-03-07 13:19:14.707][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:14.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:14.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:14.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:14.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:14.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:14.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:19:14.721][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.722][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.724][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.737][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.739][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.742][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.744][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:14.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.748][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.749][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.750][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.752][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.756][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.757][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.759][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.760][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.764][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.767][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.772][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.773][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.774][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.779][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.781][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.782][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.784][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:14.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.788][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.789][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.790][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.791][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:14.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.795][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.796][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.797][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.798][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.802][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.803][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.804][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.805][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.809][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.810][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.811][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.812][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:14.817][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:14.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.819][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.820][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:14.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:14.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.824][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.825][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.826][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:14.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.831][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.832][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.834][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:14.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.847][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.849][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.851][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:14.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:14.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.856][ef$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.857][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.859][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.860][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.864][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:14.865][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:14.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.867][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.868][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:14.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:14.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.871][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:19:14.872][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.874][ef$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.875][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-03-07 13:19:14.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:14.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:14.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.891][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.895][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.898][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-07 13:19:14.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.902][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.905][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.909][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-03-07 13:19:14.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-07 13:19:14.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-03-07 13:19:14.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.936][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.947][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-03-07 13:19:14.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.953][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.957][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-03-07 13:19:14.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.966][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.972][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-03-07 13:19:14.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.976][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.979][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.983][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:14.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:14.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.986][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.993][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-07 13:19:14.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-07 13:19:14.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:14.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:14.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:14.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:14.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.001][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:15.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:15.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-07 13:19:15.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-07 13:19:15.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.021][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:15.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:15.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.024][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:15.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:15.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.028][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:15.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-07 13:19:15.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:15.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:15.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:15.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:15.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:15.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-07 13:19:15.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:15.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:15.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:15.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:15.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:15.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:15.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.064][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:15.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:15.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.068][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:15.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:15.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.071][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:15.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-03-07 13:19:15.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.075][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:15.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:15.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.080][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:15.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:15.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.084][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:15.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-03-07 13:19:15.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.087][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:15.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:15.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:15.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:15.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.094][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-07 13:19:15.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-07 13:19:15.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.097][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:19:15.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.111][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-03-07 13:19:15.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-07 13:19:15.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:15.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:15.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:15.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:15.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:15.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:15.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.127][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:15.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:15.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-07 13:19:15.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-07 13:19:15.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.134][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:15.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:15.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.137][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:15.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:15.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:15.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:15.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.145][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:15.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-03-07 13:19:15.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:15.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:15.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:15.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:15.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:15.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:15.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:15.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:15.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:15.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:15.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-07 13:19:15.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-07 13:19:15.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:15.182][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-03-07 13:19:15.183][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.187][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.190][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.193][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:15.197][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 13:19:15.197][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:19:15.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:15.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:15.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:15.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:15.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:15.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:15.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:15.214][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-07 13:19:15.215][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-07 13:19:15.216][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-03-07 13:19:15.218][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:15.220][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:15.222][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:19:15.223][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:15.224][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:19:15.225][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:19:15.226][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:19:15.227][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:19:15.228][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:19:15.230][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 13:19:15.231][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 13:19:15.232][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.236][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.239][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.243][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.247][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.251][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.255][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:15.265][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 13:19:15.267][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 13:19:15.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:15.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:15.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:15.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:15.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:15.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:15.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:19:15.281][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.285][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.293][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.296][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.300][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.303][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:15.306][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-07 13:19:15.307][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 13:19:15.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:15.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:15.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:15.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:15.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:15.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:15.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-07 13:19:15.323][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-03-07 13:19:15.324][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-07 13:19:15.325][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-03-07 13:19:15.327][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:15.328][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:15.329][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-03-07 13:19:15.331][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-03-07 13:19:15.331][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-03-07 13:19:15.333][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-03-07 13:19:15.334][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-03-07 13:19:15.335][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-03-07 13:19:15.335][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-03-07 13:19:15.336][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-03-07 13:19:15.337][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-03-07 13:19:15.339][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.342][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.346][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.350][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.354][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.358][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.361][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:15.364][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-03-07 13:19:15.365][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-03-07 13:19:15.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:15.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:15.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:15.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:15.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:15.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:15.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-07 13:19:15.386][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.390][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.394][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.398][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.402][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.405][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-07 13:19:15.408][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-03-07 13:19:15.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-03-07 13:19:15.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-07 13:19:15.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-07 13:19:15.412][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-03-07 13:19:15.413][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-03-07 13:19:15.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-07 13:19:15.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:15.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:15.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:15.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:15.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:15.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-07 13:19:15.431][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-07 13:19:15.433][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-03-07 13:19:15.434][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-03-07 13:19:15.435][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-07 13:19:15.435][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-07 13:19:15.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-07 13:19:15.437][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-07 13:19:15.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-07 13:19:15.439][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-07 13:19:15.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  9.110   0.598  33.885

CHECK results for biodbHmdb on kjohnson1

Summary

Command output

Installation output

Tests output

Example timings