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	4.4.2 (2024-10-31) -- "Pile of Leaves"	4744
palomino8	Windows Server 2022 Datacenter	x64	4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"	4487
merida1	macOS 12.7.5 Monterey	x86_64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4515
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4467
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4358
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: 2025-01-03 12:17:51 -0500 (Fri, 03 Jan 2025)

EndedAt: 2025-01-03 12:18:43 -0500 (Fri, 03 Jan 2025)

EllapsedTime: 51.5 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 4.4.2 (2024-10-31)
* 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 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 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 [2025-01-03 12:18:28.164][biodb::testContext]
biodb.INFO [2025-01-03 12:18:28.169][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 12:18:28.170][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-01-03 12:18:28.170][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 12:18:28.171][biodb::testContext]
biodb.INFO [2025-01-03 12:18:28.173][biodb::testThat]
biodb.INFO [2025-01-03 12:18:28.174][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-01-03 12:18:28.175][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:28.176][biodb::testThat]
biodb.INFO [2025-01-03 12:18:28.303][biodb::testContext]
biodb.INFO [2025-01-03 12:18:28.304][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 12:18:28.305][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-03 12:18:28.306][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 12:18:28.307][biodb::testContext]
biodb.INFO [2025-01-03 12:18:28.319][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-03 12:18:28.321][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-03 12:18:28.331][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:28.332][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-03 12:18:28.333][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-03 12:18:28.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.337][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-03 12:18:28.363][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-03 12:18:28.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.367][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-03 12:18:28.368][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-03 12:18:28.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.371][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-03 12:18:28.372][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-03 12:18:28.372][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-03 12:18:28.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.375][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-03 12:18:28.376][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-03 12:18:28.377][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-03 12:18:28.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.380][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-03 12:18:28.381][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-03 12:18:28.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.384][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-03 12:18:28.384][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-03 12:18:28.385][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-03 12:18:28.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.388][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-03 12:18:28.389][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-03 12:18:28.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.392][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-03 12:18:28.393][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-03 12:18:28.394][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-03 12:18:28.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.398][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-03 12:18:28.399][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-03 12:18:28.400][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-03 12:18:28.401][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-03 12:18:28.402][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-03 12:18:28.404][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-03 12:18:28.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.407][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-03 12:18:28.408][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-03 12:18:28.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.411][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-03 12:18:28.412][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-03 12:18:28.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.415][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-03 12:18:28.415][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-03 12:18:28.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.418][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-03 12:18:28.419][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-03 12:18:28.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.422][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-03 12:18:28.423][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-03 12:18:28.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.426][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-03 12:18:28.427][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-03 12:18:28.444][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-03 12:18:28.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.448][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-03 12:18:28.448][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-03 12:18:28.449][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-03 12:18:28.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.456][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-03 12:18:28.492][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.508][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-03 12:18:28.509][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.510][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:28.511][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.512][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.513][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.514][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.514][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 12:18:28.515][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:28.516][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.517][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-03 12:18:28.518][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:28.519][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.519][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.520][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:28.520][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 12:18:28.520][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 12:18:28.520][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 12:18:28.520][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 12:18:28.521][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:28.522][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.524][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:28.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.533][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.534][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.535][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:28.536][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:28.537][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.538][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.540][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-03 12:18:28.542][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.543][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 12:18:28.544][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.545][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:28.545][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.546][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.547][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.548][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.549][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 12:18:28.551][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:28.552][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.553][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-03 12:18:28.554][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:28.554][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.555][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.556][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:28.556][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 12:18:28.556][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 12:18:28.556][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 12:18:28.556][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 12:18:28.557][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:28.558][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.560][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:28.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.561][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.562][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.563][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.564][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:28.564][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:28.565][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.566][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.567][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-03 12:18:28.569][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.570][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-03 12:18:28.571][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.572][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:28.573][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.573][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.574][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.575][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.576][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 12:18:28.577][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:28.578][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.578][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-03 12:18:28.579][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:28.580][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.581][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.582][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.582][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:28.583][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.584][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.585][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:28.585][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.586][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.587][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.588][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.588][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:28.589][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:28.590][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.591][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.592][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-03 12:18:28.593][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.594][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 12:18:28.595][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.596][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:28.597][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.598][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.598][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.599][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.600][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 12:18:28.601][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:28.602][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.602][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-03 12:18:28.603][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:28.604][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.605][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.606][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.606][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:28.607][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.608][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.609][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:28.610][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.610][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.611][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.612][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.613][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:28.613][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:28.614][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.615][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:28.620][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:28.621][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.622][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[2025-01-03 12:18:28.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.626][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[2025-01-03 12:18:28.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.638][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[2025-01-03 12:18:28.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.642][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[2025-01-03 12:18:28.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.697][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-03 12:18:28.704][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-03 12:18:28.705][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-03 12:18:28.707][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-03 12:18:28.708][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-03 12:18:28.709][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 12:18:28.710][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-03 12:18:28.711][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-03 12:18:28.713][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-03 12:18:28.714][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 12:18:28.715][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 12:18:28.717][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-03 12:18:28.718][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-03 12:18:28.720][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-03 12:18:28.721][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-03 12:18:28.722][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 12:18:28.723][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-03 12:18:28.725][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-03 12:18:28.726][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-03 12:18:28.727][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-03 12:18:28.728][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-03 12:18:28.730][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-03 12:18:28.731][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-03 12:18:28.732][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-03 12:18:28.734][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-03 12:18:28.735][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-03 12:18:28.736][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-03 12:18:28.737][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-03 12:18:28.738][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-03 12:18:28.739][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-03 12:18:28.741][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-03 12:18:28.742][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-03 12:18:28.743][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-03 12:18:28.744][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-03 12:18:28.745][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-03 12:18:28.746][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-03 12:18:28.747][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-03 12:18:28.749][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-03 12:18:28.750][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-03 12:18:28.751][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-03 12:18:28.752][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-03 12:18:28.753][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-03 12:18:28.754][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-03 12:18:28.755][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-03 12:18:28.757][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-03 12:18:28.758][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-03 12:18:28.759][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-03 12:18:28.760][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-03 12:18:28.761][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-03 12:18:28.762][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-03 12:18:28.764][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-03 12:18:28.765][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-03 12:18:28.766][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-03 12:18:28.767][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-03 12:18:28.768][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-03 12:18:28.770][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-03 12:18:28.771][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-03 12:18:28.772][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-03 12:18:28.773][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-03 12:18:28.774][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-03 12:18:28.776][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-03 12:18:28.777][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-03 12:18:28.778][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-03 12:18:28.779][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-03 12:18:28.781][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-03 12:18:28.783][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-03 12:18:28.784][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-03 12:18:28.785][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-03 12:18:28.787][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-03 12:18:28.788][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-03 12:18:28.790][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-03 12:18:28.791][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-03 12:18:28.793][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-03 12:18:28.794][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-03 12:18:28.795][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-03 12:18:28.797][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-03 12:18:28.798][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-03 12:18:28.799][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-03 12:18:28.801][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-03 12:18:28.802][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-03 12:18:28.803][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-03 12:18:28.805][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-03 12:18:28.806][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-03 12:18:28.813][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-03 12:18:28.815][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-03 12:18:28.819][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:28.821][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.822][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.848][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[2025-01-03 12:18:28.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.920][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[2025-01-03 12:18:28.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:28.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:28.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:28.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:28.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:28.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:28.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:28.964][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-03 12:18:28.974][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:28.977][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.978][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.979][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.979][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:28.980][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.981][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-03 12:18:28.982][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.983][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.984][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-03 12:18:28.984][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:28.985][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:28.986][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-03 12:18:28.987][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-03 12:18:28.988][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-03 12:18:28.989][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:28.990][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:28.990][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-03 12:18:28.990][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-03 12:18:28.991][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-03 12:18:28.991][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.992][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.993][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:28.994][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:28.995][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:28.996][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:28.996][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 12:18:28.996][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-03 12:18:28.997][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:28.998][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:28.999][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:29.000][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:29.007][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-03 12:18:29.009][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 12:18:29.010][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 12:18:29.012][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 12:18:29.014][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 12:18:29.046][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:29.048][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-03 12:18:29.053][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:29.058][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 12:18:29.064][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:29.065][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:29.066][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-03 12:18:29.067][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-03 12:18:29.068][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 12:18:29.068][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-03 12:18:29.068][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:29.069][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:29.070][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-03 12:18:29.071][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-03 12:18:29.072][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:29.101][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 12:18:29.103][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:29.104][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:29.105][private$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[2025-01-03 12:18:29.106][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:29.107][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-03 12:18:29.118][biodb::testThat]
biodb.INFO [2025-01-03 12:18:29.119][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-03 12:18:29.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:29.121][biodb::testThat]
biodb.TRACE[2025-01-03 12:18:29.126][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[2025-01-03 12:18:29.128][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 12:18:29.132][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 12:18:29.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:29.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:29.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:29.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:29.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:29.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:29.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 12:18:29.169][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.171][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.172][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.190][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.191][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.192][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.218][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.222][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.223][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.225][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.226][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.230][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.230][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.232][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.233][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.236][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.237][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.239][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.243][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.244][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.246][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.250][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.251][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.252][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.254][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.267][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.268][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.269][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.270][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.274][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.274][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.276][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.277][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.280][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.281][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.283][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.284][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.287][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.290][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.294][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:29.295][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:29.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.296][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:29.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:29.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.301][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.302][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.303][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.308][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.309][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.311][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.315][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.316][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.317][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.322][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.323][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.324][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.325][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.328][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:29.329][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:29.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.331][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.333][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:29.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:29.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.336][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:29.337][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:29.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.339][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.340][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:29.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:29.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.392][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.396][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.399][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:29.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.402][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.405][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.409][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:29.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.434][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.438][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.441][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:29.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.445][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.448][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.451][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:29.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.455][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:29.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:29.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.458][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:29.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:29.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:29.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:29.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.465][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.468][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.473][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.477][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.481][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:29.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:29.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:29.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:29.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:29.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:29.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.508][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.511][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.520][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:29.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.537][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.541][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.544][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.547][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.551][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.554][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.557][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.560][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.564][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:29.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:29.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.567][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:29.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:29.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:29.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:29.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.573][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:29.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.587][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:29.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:29.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.612][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.616][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.626][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.629][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.636][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:29.665][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-03 12:18:29.667][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 12:18:29.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 12:18:29.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.671][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 12:18:29.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 12:18:29.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.674][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-03 12:18:29.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-03 12:18:29.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.677][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-03 12:18:29.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-03 12:18:29.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.710][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.739][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.742][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.746][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:29.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.768][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.768][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.770][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:29.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:29.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.783][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.794][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.802][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.803][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.804][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.805][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:29.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.828][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.829][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.831][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:29.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.844][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.848][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.852][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.855][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.856][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.857][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.858][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:29.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.881][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.882][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.883][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:29.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.897][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.901][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.909][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.910][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.912][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.913][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:29.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.944][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.945][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.946][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:29.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:29.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.959][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.963][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.966][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.970][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.971][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.972][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.973][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:29.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:29.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.986][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.989][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.993][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.996][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:29.997][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:29.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:29.998][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:29.999][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:30.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:30.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.011][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.014][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.018][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.021][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.022][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.023][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.024][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.045][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.046][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.048][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.060][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.064][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.067][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.077][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.078][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.080][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.080][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.092][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.095][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.098][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.102][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.103][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.104][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.105][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.117][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.121][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.124][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.128][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.128][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.130][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.131][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.142][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.146][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.149][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.152][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.153][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.155][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.155][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.177][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.179][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.180][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.201][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.202][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.209][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.222][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.225][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.229][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.232][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.233][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.234][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.236][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.248][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.249][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.251][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.257][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.259][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.260][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.266][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.267][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.268][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.276][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.281][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.282][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.283][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.288][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.289][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.291][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.296][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.297][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.298][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.303][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.304][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.305][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.310][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:30.311][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:30.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.312][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.317][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:30.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:30.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.320][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.324][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.325][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.327][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.331][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.332][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.334][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.338][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.339][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.341][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.345][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.347][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.348][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.360][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.361][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.362][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.367][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.368][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.370][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.374][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.375][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.377][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.384][ef$get] fields variable is a list.
biodb.INFO [2025-01-03 12:18:30.392][biodb::testThat]
biodb.INFO [2025-01-03 12:18:30.393][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-03 12:18:30.394][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:30.395][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:30.409][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-03 12:18:30.419][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 12:18:30.424][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:30.425][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 12:18:30.427][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-03 12:18:30.428][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-03 12:18:30.431][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-03 12:18:30.432][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 12:18:30.456][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 12:18:30.457][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 12:18:30.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:30.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:30.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:30.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:30.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:30.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:30.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 12:18:30.473][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.475][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.476][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.481][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.482][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.483][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.485][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.489][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.489][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.491][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.492][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.496][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.496][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.498][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.507][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.513][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.517][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.518][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.520][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.524][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.525][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.527][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.528][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.532][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.533][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.534][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.536][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.539][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.540][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.541][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.542][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.546][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.547][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.548][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.549][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.552][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:30.553][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:30.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.555][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.556][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:30.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:30.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.559][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.560][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.562][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.566][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.567][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.569][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.570][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.574][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.576][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.580][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.581][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.583][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.584][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.587][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:30.588][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:30.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.589][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.590][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:30.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:30.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.594][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.594][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.596][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.597][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.600][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:30.601][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.603][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.604][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:30.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.617][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.629][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:30.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.633][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.636][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.639][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:30.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:30.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:30.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.665][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.668][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.672][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:30.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.675][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.678][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.682][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:30.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.685][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.688][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.692][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:30.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.695][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:30.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:30.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.698][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:30.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:30.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.701][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:30.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:30.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.705][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:30.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:30.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.708][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:30.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:30.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.711][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:30.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:30.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:30.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:30.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.733][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.737][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.746][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:30.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:30.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.769][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.772][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.775][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:30.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.779][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.782][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.785][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:30.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.792][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.795][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:30.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:30.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.798][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:30.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.811][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:30.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:30.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.822][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.829][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.832][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:30.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:30.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.835][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:30.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:30.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.842][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:30.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:30.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:30.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:30.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:30.871][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-03 12:18:30.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-03 12:18:30.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-03 12:18:30.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-03 12:18:30.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-03 12:18:30.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-03 12:18:30.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-03 12:18:30.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-03 12:18:30.891][biodb::testThat]
biodb.INFO [2025-01-03 12:18:30.892][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-03 12:18:30.893][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:30.894][biodb::testThat]
biodb.TRACE[2025-01-03 12:18:30.897][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.898][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.899][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:30.901][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-01-03 12:18:30.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:30.944][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-01-03 12:18:30.946][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-03 12:18:30.947][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-03 12:18:30.948][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-03 12:18:30.950][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:30.951][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:30.953][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:30.954][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:30.955][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:30.956][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:30.957][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:30.958][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:30.959][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:30.960][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 12:18:30.961][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 12:18:30.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.970][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:30.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:30.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:30.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:30.977][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 12:18:30.978][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 12:18:30.978][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-03 12:18:30.993][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:30.995][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:30.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:30.996][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:30.998][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-01-03 12:18:31.018][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:31.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:31.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.022][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:31.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:31.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.025][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:31.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:31.032][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[2025-01-03 12:18:31.085][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-03 12:18:31.087][private$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[2025-01-03 12:18:31.088][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-03 12:18:31.102][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.103][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.104][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:31.106][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.106][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:31.129][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:31.130][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:31.131][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:31.132][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:31.133][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 12:18:31.134][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 12:18:31.136][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:31.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:31.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.140][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:31.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:31.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.143][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:31.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:31.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.147][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:31.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:31.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:31.151][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 12:18:31.151][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 12:18:31.152][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-03 12:18:31.166][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.167][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.169][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:31.170][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-01-03 12:18:31.183][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.187][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.190][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:31.198][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-01-03 12:18:31.199][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-01-03 12:18:31.200][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-03 12:18:31.201][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-03 12:18:31.202][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.204][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.205][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:31.206][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.207][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:31.208][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:31.209][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:31.210][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:31.211][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:31.211][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 12:18:31.212][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 12:18:31.214][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.217][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.221][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.224][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:31.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:31.228][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 12:18:31.229][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 12:18:31.229][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-01-03 12:18:31.244][biodb::testThat]
biodb.INFO [2025-01-03 12:18:31.245][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-03 12:18:31.246][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:31.247][biodb::testThat]
biodb.TRACE[2025-01-03 12:18:31.257][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:31.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:31.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:31.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:31.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.271][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:31.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:31.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:31.287][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-03 12:18:31.288][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-03 12:18:31.289][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-03 12:18:31.291][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.292][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.293][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:31.294][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:31.295][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:31.296][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:31.297][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:31.298][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:31.299][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:31.300][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 12:18:31.301][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 12:18:31.303][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:31.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:31.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.306][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:31.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:31.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.309][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:31.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:31.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:31.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:31.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:31.316][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 12:18:31.316][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-03 12:18:31.332][biodb::testThat]
biodb.INFO [2025-01-03 12:18:31.333][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-03 12:18:31.334][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:31.335][biodb::testThat]
biodb.TRACE[2025-01-03 12:18:31.357][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 12:18:31.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 12:18:31.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.361][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 12:18:31.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 12:18:31.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.364][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-03 12:18:31.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-03 12:18:31.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.368][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-03 12:18:31.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-03 12:18:31.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.421][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 12:18:31.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 12:18:31.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.425][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 12:18:31.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 12:18:31.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.428][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-03 12:18:31.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-03 12:18:31.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:31.431][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-03 12:18:31.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-03 12:18:31.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:31.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-03 12:18:31.442][biodb::testThat]
biodb.INFO [2025-01-03 12:18:31.443][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-03 12:18:31.444][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:31.445][biodb::testThat]
biodb.INFO [2025-01-03 12:18:31.454][biodb::testThat]
biodb.INFO [2025-01-03 12:18:31.455][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-03 12:18:31.456][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:31.457][biodb::testThat]
biodb.INFO [2025-01-03 12:18:31.465][biodb::testThat]
biodb.INFO [2025-01-03 12:18:31.466][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-03 12:18:31.467][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:31.468][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:31.471][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-03 12:18:32.958][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-03 12:18:33.151][biodb::testThat]
biodb.INFO [2025-01-03 12:18:33.152][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-03 12:18:33.153][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:33.154][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:33.790][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-03 12:18:33.976][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:33.978][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:33.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:33.979][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:33.980][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:33.981][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:33.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:33.983][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:33.983][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:33.984][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:33.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:33.986][ef$get] fields variable is a list.
biodb.INFO [2025-01-03 12:18:33.988][biodb::testThat]
biodb.INFO [2025-01-03 12:18:33.988][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-03 12:18:33.989][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:33.990][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:33.992][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-03 12:18:34.048][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 12:18:34.050][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.051][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 12:18:34.067][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-03 12:18:34.069][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-03 12:18:34.070][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-03 12:18:34.071][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 12:18:34.072][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.073][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 12:18:34.074][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 12:18:34.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:34.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.086][FUN] Functions in observer BiodbConfig: [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[2025-01-03 12:18:34.088][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:34.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:34.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.091][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:34.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:34.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:34.158][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-03 12:18:34.160][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-03 12:18:34.177][biodb::testThat]
biodb.INFO [2025-01-03 12:18:34.178][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-03 12:18:34.179][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:34.180][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:34.190][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-01-03 12:18:34.192][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-01-03 12:18:34.193][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 12:18:34.195][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.197][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 12:18:34.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-01-03 12:18:34.200][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-03 12:18:34.201][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-03 12:18:34.202][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 12:18:34.204][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.205][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 12:18:34.206][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 12:18:34.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:34.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 12:18:34.221][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:34.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:34.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.225][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:34.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:34.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:34.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:34.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:34.250][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-03 12:18:34.251][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-03 12:18:34.252][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-01-03 12:18:34.274][biodb::testThat]
biodb.INFO [2025-01-03 12:18:34.275][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-03 12:18:34.276][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:34.277][biodb::testThat]
biodb.INFO [2025-01-03 12:18:34.302][biodb::testThat]
biodb.INFO [2025-01-03 12:18:34.304][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-03 12:18:34.305][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:34.305][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:34.308][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.309][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.311][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:34.312][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.313][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:34.314][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:34.315][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:34.316][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:34.317][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-01-03 12:18:34.326][biodb::testThat]
biodb.INFO [2025-01-03 12:18:34.327][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-03 12:18:34.328][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:34.329][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:34.332][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.333][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.335][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:34.337][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.338][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:34.339][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:34.340][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:34.341][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:34.342][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-01-03 12:18:34.352][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:34.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:34.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.355][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.356][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:34.357][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:34.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.359][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:34.359][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:34.360][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:34.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:34.362][ef$get] fields variable is a list.
biodb.INFO [2025-01-03 12:18:34.363][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-03 12:18:34.364][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-03 12:18:34.372][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-03 12:18:34.373][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-03 12:18:34.374][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.376][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.377][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.378][FUN] Functions in observer BiodbConfig: [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 [2025-01-03 12:18:34.382][biodb::testContext]
biodb.INFO [2025-01-03 12:18:34.383][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 12:18:34.384][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-01-03 12:18:34.385][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 12:18:34.386][biodb::testContext]
biodb.INFO [2025-01-03 12:18:34.398][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-03 12:18:34.401][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-03 12:18:34.406][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:34.407][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-03 12:18:34.408][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-03 12:18:34.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.412][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-03 12:18:34.430][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-03 12:18:34.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.433][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-03 12:18:34.434][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-03 12:18:34.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.438][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-03 12:18:34.438][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-03 12:18:34.439][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-03 12:18:34.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.442][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-03 12:18:34.443][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-03 12:18:34.444][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-03 12:18:34.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.447][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-03 12:18:34.448][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-03 12:18:34.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.451][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-03 12:18:34.452][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-03 12:18:34.453][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-03 12:18:34.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.456][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-03 12:18:34.457][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-03 12:18:34.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.460][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-03 12:18:34.461][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-03 12:18:34.462][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-03 12:18:34.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.465][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-03 12:18:34.466][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-03 12:18:34.467][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-03 12:18:34.468][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-03 12:18:34.468][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-03 12:18:34.469][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-03 12:18:34.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.472][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-03 12:18:34.473][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-03 12:18:34.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.476][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-03 12:18:34.477][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-03 12:18:34.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.480][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-03 12:18:34.481][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-03 12:18:34.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.483][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-03 12:18:34.484][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-03 12:18:34.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.487][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-03 12:18:34.488][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-03 12:18:34.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.497][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-03 12:18:34.498][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-03 12:18:34.515][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-03 12:18:34.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.519][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[2025-01-03 12:18:34.519][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-03 12:18:34.520][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-03 12:18:34.521][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-03 12:18:34.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.525][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-03 12:18:34.526][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.527][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-03 12:18:34.528][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.529][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:34.530][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.531][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.531][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.532][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.533][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 12:18:34.534][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:34.535][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.536][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-03 12:18:34.536][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:34.537][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.538][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.539][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:34.539][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 12:18:34.539][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 12:18:34.539][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 12:18:34.539][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 12:18:34.540][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:34.541][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.541][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.542][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:34.543][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.544][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.544][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.545][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.546][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:34.547][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:34.548][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.548][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.549][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-03 12:18:34.551][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.552][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 12:18:34.553][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.554][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:34.554][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.555][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.556][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.557][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.558][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 12:18:34.559][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:34.560][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.561][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-03 12:18:34.562][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:34.562][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.563][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.564][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:34.564][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 12:18:34.564][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 12:18:34.564][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 12:18:34.564][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 12:18:34.565][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:34.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.566][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.567][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:34.568][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.569][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.570][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.570][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.571][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:34.572][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:34.573][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.574][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.575][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-03 12:18:34.576][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.577][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-03 12:18:34.579][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.580][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:34.581][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.582][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.583][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.584][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.585][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 12:18:34.585][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:34.586][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.587][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-03 12:18:34.588][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:34.589][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.590][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.590][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.591][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:34.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.594][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:34.595][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.595][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.596][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.597][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.598][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:34.598][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:34.599][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.600][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.601][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-03 12:18:34.603][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.603][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 12:18:34.604][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.611][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:34.612][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.614][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.615][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.616][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.616][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 12:18:34.617][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:34.618][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.619][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-03 12:18:34.620][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:34.620][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.621][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.622][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.623][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:34.623][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.624][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.625][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:34.626][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.626][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.627][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.628][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.629][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:34.629][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:34.630][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.631][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.632][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:34.633][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.634][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[2025-01-03 12:18:34.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.641][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[2025-01-03 12:18:34.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.665][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[2025-01-03 12:18:34.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.669][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[2025-01-03 12:18:34.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.672][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[2025-01-03 12:18:34.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.676][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[2025-01-03 12:18:34.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.694][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-03 12:18:34.702][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-03 12:18:34.704][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-03 12:18:34.706][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-03 12:18:34.707][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-03 12:18:34.708][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 12:18:34.709][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-03 12:18:34.710][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-03 12:18:34.711][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-03 12:18:34.713][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 12:18:34.714][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 12:18:34.715][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-03 12:18:34.716][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-03 12:18:34.717][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-03 12:18:34.718][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-03 12:18:34.719][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 12:18:34.721][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-03 12:18:34.722][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-03 12:18:34.723][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-03 12:18:34.724][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-03 12:18:34.725][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-03 12:18:34.727][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-03 12:18:34.728][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-03 12:18:34.729][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-03 12:18:34.730][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-03 12:18:34.731][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-03 12:18:34.732][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-03 12:18:34.733][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-03 12:18:34.735][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-03 12:18:34.736][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-03 12:18:34.737][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-03 12:18:34.738][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-03 12:18:34.739][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-03 12:18:34.741][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-03 12:18:34.742][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-03 12:18:34.743][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-03 12:18:34.744][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-03 12:18:34.745][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-03 12:18:34.747][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-03 12:18:34.748][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-03 12:18:34.749][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-03 12:18:34.750][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-03 12:18:34.751][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-03 12:18:34.752][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-03 12:18:34.754][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-03 12:18:34.755][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-03 12:18:34.756][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-03 12:18:34.757][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-03 12:18:34.758][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-03 12:18:34.759][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-03 12:18:34.761][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-03 12:18:34.762][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-03 12:18:34.763][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-03 12:18:34.764][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-03 12:18:34.765][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-03 12:18:34.766][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-03 12:18:34.768][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-03 12:18:34.769][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-03 12:18:34.770][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-03 12:18:34.771][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-03 12:18:34.772][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-03 12:18:34.773][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-03 12:18:34.775][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-03 12:18:34.776][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-03 12:18:34.777][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-03 12:18:34.778][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-03 12:18:34.779][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-03 12:18:34.781][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-03 12:18:34.782][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-03 12:18:34.783][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-03 12:18:34.784][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-03 12:18:34.785][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-03 12:18:34.786][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-03 12:18:34.794][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-03 12:18:34.796][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-03 12:18:34.798][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-03 12:18:34.799][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-03 12:18:34.800][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-03 12:18:34.801][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-03 12:18:34.802][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-03 12:18:34.804][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-03 12:18:34.805][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-03 12:18:34.806][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-03 12:18:34.807][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-03 12:18:34.809][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-03 12:18:34.810][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:34.811][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.812][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.848][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[2025-01-03 12:18:34.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.878][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[2025-01-03 12:18:34.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:34.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:34.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:34.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:34.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:34.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:34.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:34.910][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-03 12:18:34.920][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:34.922][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.923][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.924][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.925][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:34.926][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.927][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-03 12:18:34.928][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.928][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.929][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-03 12:18:34.930][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:34.931][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.932][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-03 12:18:34.932][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-03 12:18:34.933][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-03 12:18:34.934][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:34.935][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:34.935][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-03 12:18:34.935][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-03 12:18:34.936][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-03 12:18:34.937][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.938][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:34.939][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:34.940][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:34.941][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:34.941][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 12:18:34.941][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-03 12:18:34.942][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:34.943][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:34.944][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:34.944][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:34.946][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-03 12:18:34.947][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 12:18:34.948][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 12:18:34.950][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 12:18:34.951][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 12:18:34.954][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:34.955][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-03 12:18:34.956][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:34.958][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 12:18:34.959][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:34.960][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:34.961][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-03 12:18:34.962][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-03 12:18:34.962][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 12:18:34.962][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-03 12:18:34.963][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:34.964][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:34.965][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-03 12:18:34.966][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-03 12:18:34.966][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:34.968][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 12:18:34.969][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:34.970][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:34.971][private$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[2025-01-03 12:18:34.972][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:34.972][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-03 12:18:34.974][biodb::testThat]
biodb.INFO [2025-01-03 12:18:34.975][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-01-03 12:18:34.976][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:34.976][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:34.987][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.989][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.990][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:34.991][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:34.992][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:34.993][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:34.995][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:34.995][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:34.996][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:35.000][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-03 12:18:35.006][biodb::testThat]
biodb.INFO [2025-01-03 12:18:35.007][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-01-03 12:18:35.008][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:35.009][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:35.010][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-03 12:18:35.011][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 12:18:35.013][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:35.014][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 12:18:35.016][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-03 12:18:35.017][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-03 12:18:35.020][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-03 12:18:35.022][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 12:18:35.024][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 12:18:35.025][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 12:18:35.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:35.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 12:18:35.040][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.041][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.043][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.048][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.049][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.051][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.052][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.056][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.057][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.058][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.059][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.063][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.064][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.065][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.066][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.072][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.077][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.078][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.079][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.084][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.085][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.087][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.088][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.091][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.099][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.101][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.103][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.107][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.107][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.109][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.110][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.114][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.114][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.116][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.117][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.121][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:35.122][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:35.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.123][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.124][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:35.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:35.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:35.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:35.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.130][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:35.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:35.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.135][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.136][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.138][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.143][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.144][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.146][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.151][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.152][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.154][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.158][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:35.159][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:35.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.161][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.162][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:35.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:35.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.165][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:35.166][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:35.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.168][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.169][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:35.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:35.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.172][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:35.173][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:35.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.174][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.175][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:35.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:35.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.189][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.203][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:35.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.207][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.210][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.213][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:35.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:35.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:35.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.244][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:35.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.247][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.251][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.254][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:35.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.258][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:35.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:35.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.261][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:35.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:35.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.265][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:35.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:35.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.268][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:35.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:35.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.272][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:35.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:35.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.277][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:35.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:35.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:35.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:35.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.283][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:35.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:35.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:35.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:35.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:35.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:35.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:35.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:35.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:35.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.318][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.321][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.324][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:35.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:35.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.344][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.348][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.351][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.354][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:35.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.357][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.364][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:35.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.368][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:35.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:35.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.371][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:35.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:35.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.374][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:35.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:35.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.378][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:35.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.381][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.396][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.399][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:35.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:35.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.413][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.416][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:35.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:35.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.420][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.423][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:35.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:35.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.430][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:35.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:35.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:35.452][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-03 12:18:35.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:35.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:35.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:35.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:35.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-03 12:18:35.470][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-03 12:18:35.472][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-03 12:18:35.473][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-03 12:18:35.473][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-03 12:18:35.474][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.476][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.477][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-03 12:18:35.490][biodb::testContext]
biodb.INFO [2025-01-03 12:18:35.491][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 12:18:35.492][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-01-03 12:18:35.493][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 12:18:35.494][biodb::testContext]
biodb.INFO [2025-01-03 12:18:35.499][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-03 12:18:35.500][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-03 12:18:35.506][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:35.507][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-03 12:18:35.508][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-03 12:18:35.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.511][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-03 12:18:35.529][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-03 12:18:35.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.532][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-03 12:18:35.533][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-03 12:18:35.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.536][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[2025-01-03 12:18:35.536][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-03 12:18:35.537][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-03 12:18:35.538][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-03 12:18:35.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.541][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-03 12:18:35.542][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-03 12:18:35.543][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-03 12:18:35.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.545][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[2025-01-03 12:18:35.546][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-03 12:18:35.547][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-03 12:18:35.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.550][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-03 12:18:35.551][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-03 12:18:35.552][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-03 12:18:35.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.556][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-03 12:18:35.557][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-03 12:18:35.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.560][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-03 12:18:35.561][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-03 12:18:35.562][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-03 12:18:35.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.565][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-03 12:18:35.566][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-03 12:18:35.567][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-03 12:18:35.567][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-03 12:18:35.568][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-03 12:18:35.569][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-03 12:18:35.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.572][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-03 12:18:35.573][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-03 12:18:35.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.576][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-03 12:18:35.577][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-03 12:18:35.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.580][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-03 12:18:35.581][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-03 12:18:35.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.592][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-03 12:18:35.594][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-03 12:18:35.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.597][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-03 12:18:35.598][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-03 12:18:35.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.600][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[2025-01-03 12:18:35.601][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-03 12:18:35.602][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-03 12:18:35.620][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-03 12:18:35.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.624][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-03 12:18:35.625][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-03 12:18:35.626][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-03 12:18:35.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.629][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-03 12:18:35.631][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.631][self$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[2025-01-03 12:18:35.632][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.633][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:35.634][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.635][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.636][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.637][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 12:18:35.638][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:35.639][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.640][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-03 12:18:35.641][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:35.641][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.642][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.643][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:35.643][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 12:18:35.643][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 12:18:35.643][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 12:18:35.643][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 12:18:35.644][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:35.645][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:35.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:35.646][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:35.647][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:35.648][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:35.649][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.649][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.650][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:35.651][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:35.652][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.652][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.653][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-03 12:18:35.655][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.656][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 12:18:35.657][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.658][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:35.658][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.659][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.660][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.661][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.662][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 12:18:35.663][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:35.663][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.664][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-03 12:18:35.665][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:35.666][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.666][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.667][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:35.667][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 12:18:35.667][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 12:18:35.667][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 12:18:35.667][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 12:18:35.668][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:35.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:35.670][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:35.670][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:35.671][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:35.672][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:35.673][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.673][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.674][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:35.675][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:35.676][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.677][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.678][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-03 12:18:35.679][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.680][self$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[2025-01-03 12:18:35.681][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.682][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:35.683][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.683][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.684][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.685][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.686][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 12:18:35.687][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:35.687][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.688][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-03 12:18:35.689][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:35.690][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.691][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.691][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.692][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:35.693][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:35.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:35.701][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:35.702][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:35.703][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:35.704][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.705][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.706][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:35.706][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:35.707][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.708][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.709][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-03 12:18:35.710][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.711][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 12:18:35.712][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.713][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:35.714][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.714][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.715][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.716][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.717][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 12:18:35.718][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:35.718][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.719][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-03 12:18:35.720][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:35.721][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.722][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:35.722][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.723][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 12:18:35.724][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:35.725][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:35.725][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:35.726][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:35.727][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:35.728][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:35.729][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.729][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:35.730][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:35.731][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:35.732][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:35.733][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:35.734][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.739][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[2025-01-03 12:18:35.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.762][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[2025-01-03 12:18:35.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.785][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[2025-01-03 12:18:35.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.789][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[2025-01-03 12:18:35.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.803][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[2025-01-03 12:18:35.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.810][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[2025-01-03 12:18:35.811][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-03 12:18:35.812][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-03 12:18:35.813][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-03 12:18:35.815][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-03 12:18:35.816][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-03 12:18:35.817][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 12:18:35.818][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-03 12:18:35.820][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-03 12:18:35.821][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-03 12:18:35.822][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 12:18:35.823][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 12:18:35.824][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-03 12:18:35.825][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-03 12:18:35.826][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-03 12:18:35.827][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-03 12:18:35.829][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 12:18:35.830][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-03 12:18:35.831][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-03 12:18:35.832][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-03 12:18:35.833][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-03 12:18:35.834][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-03 12:18:35.836][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-03 12:18:35.837][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-03 12:18:35.838][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-03 12:18:35.839][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-03 12:18:35.840][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-03 12:18:35.841][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-03 12:18:35.843][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-03 12:18:35.844][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-03 12:18:35.845][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-03 12:18:35.846][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-03 12:18:35.847][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-03 12:18:35.848][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-03 12:18:35.849][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-03 12:18:35.851][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-03 12:18:35.852][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-03 12:18:35.853][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-03 12:18:35.854][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-03 12:18:35.855][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-03 12:18:35.856][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-03 12:18:35.857][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-03 12:18:35.859][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-03 12:18:35.860][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-03 12:18:35.861][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-03 12:18:35.862][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-03 12:18:35.863][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-03 12:18:35.864][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-03 12:18:35.866][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-03 12:18:35.867][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-03 12:18:35.868][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-03 12:18:35.869][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-03 12:18:35.870][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-03 12:18:35.871][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-03 12:18:35.872][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-03 12:18:35.873][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-03 12:18:35.875][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-03 12:18:35.876][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-03 12:18:35.877][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-03 12:18:35.885][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-03 12:18:35.887][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-03 12:18:35.888][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-03 12:18:35.889][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-03 12:18:35.890][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-03 12:18:35.891][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-03 12:18:35.893][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-03 12:18:35.894][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-03 12:18:35.895][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-03 12:18:35.896][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-03 12:18:35.897][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-03 12:18:35.898][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-03 12:18:35.899][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-03 12:18:35.900][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-03 12:18:35.902][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-03 12:18:35.903][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-03 12:18:35.904][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-03 12:18:35.905][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-03 12:18:35.906][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-03 12:18:35.907][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-03 12:18:35.909][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-03 12:18:35.910][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-03 12:18:35.911][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-03 12:18:35.912][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-03 12:18:35.913][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-03 12:18:35.914][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-03 12:18:35.916][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-03 12:18:35.917][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 12:18:35.918][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.919][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.920][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[2025-01-03 12:18:35.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.953][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:35.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:35.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:35.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:35.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:35.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:35.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:35.999][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[2025-01-03 12:18:36.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:36.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:36.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:36.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:36.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:36.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:36.004][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[2025-01-03 12:18:36.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:36.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:36.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:36.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:36.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:36.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:36.009][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[2025-01-03 12:18:36.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 12:18:36.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:36.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:36.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:36.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:36.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:36.014][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[2025-01-03 12:18:36.016][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-03 12:18:36.027][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:36.029][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:36.030][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-03 12:18:36.031][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:36.032][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 12:18:36.033][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:36.033][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-03 12:18:36.034][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:36.035][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 12:18:36.036][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-03 12:18:36.037][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 12:18:36.038][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:36.039][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-03 12:18:36.039][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-03 12:18:36.040][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-03 12:18:36.042][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-03 12:18:36.042][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 12:18:36.042][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-03 12:18:36.042][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-03 12:18:36.043][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-03 12:18:36.044][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:36.045][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:36.046][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 12:18:36.047][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 12:18:36.047][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 12:18:36.048][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 12:18:36.049][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 12:18:36.049][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-03 12:18:36.050][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:36.051][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:36.052][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-03 12:18:36.052][self$setPropertyValue]
biodb.DEBUG[2025-01-03 12:18:36.054][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-03 12:18:36.055][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 12:18:36.057][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 12:18:36.058][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 12:18:36.060][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 12:18:36.071][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:36.072][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-03 12:18:36.073][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:36.075][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 12:18:36.076][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:36.077][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:36.078][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-03 12:18:36.079][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-03 12:18:36.080][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 12:18:36.080][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-03 12:18:36.080][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 12:18:36.081][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 12:18:36.082][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-03 12:18:36.083][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-03 12:18:36.084][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 12:18:36.085][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 12:18:36.086][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:36.087][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:36.088][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 12:18:36.089][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 12:18:36.090][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-03 12:18:36.091][biodb::testThat]
biodb.INFO [2025-01-03 12:18:36.092][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-01-03 12:18:36.093][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 12:18:36.094][biodb::testThat]
biodb.DEBUG[2025-01-03 12:18:36.096][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-03 12:18:36.096][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-03 12:18:36.097][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-03 12:18:36.101][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:36.102][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:36.103][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:36.105][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:36.105][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:36.107][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:36.108][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:36.109][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:36.109][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:36.110][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 12:18:36.111][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-01-03 12:18:36.113][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-03 12:18:36.114][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 12:18:36.115][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:36.117][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 12:18:36.119][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-03 12:18:36.120][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-03 12:18:36.126][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-03 12:18:36.127][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 12:18:36.129][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 12:18:36.130][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 12:18:36.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:36.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:36.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:36.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:36.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:36.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:36.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 12:18:36.146][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.147][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.149][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.154][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.155][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.157][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.158][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.162][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.163][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.165][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.166][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.169][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.170][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.172][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.173][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.185][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.186][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.188][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.193][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.194][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.196][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.201][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.202][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.204][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.205][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.208][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.209][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.212][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.215][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.216][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.218][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.219][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.222][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.223][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.225][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.226][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.229][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.230][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.231][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.236][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.237][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.238][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.243][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.243][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.245][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.250][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.250][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.252][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.257][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.259][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.263][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.264][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.266][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.267][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.288][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.291][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.292][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.296][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:36.297][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.299][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.300][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:36.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.314][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.317][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.321][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.325][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.329][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.332][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.355][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.359][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.362][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.365][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.369][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.372][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.386][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.391][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.395][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.398][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.402][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.405][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.408][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.412][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.422][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.425][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.435][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.438][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.442][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.465][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.468][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.471][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.482][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.488][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.491][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.496][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.499][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.502][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.505][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:36.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.518][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:36.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.529][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.536][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.539][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:36.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:36.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.543][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:36.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:36.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.549][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:36.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:36.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:36.581][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-03 12:18:36.582][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.586][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.590][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.593][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:36.596][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 12:18:36.597][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 12:18:36.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:36.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:36.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:36.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:36.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:36.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:36.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:36.609][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-03 12:18:36.610][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 12:18:36.612][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:36.613][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 12:18:36.615][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-03 12:18:36.616][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-03 12:18:36.617][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-03 12:18:36.619][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 12:18:36.620][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 12:18:36.622][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 12:18:36.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:36.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:36.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:36.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:36.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:36.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:36.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 12:18:36.637][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.638][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.640][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.644][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.645][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.647][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.648][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.652][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.653][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.654][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.655][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.659][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.660][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.661][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.662][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.666][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.667][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.668][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.673][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.674][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.675][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.687][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.689][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.691][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.692][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.696][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.697][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.699][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.700][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.703][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.704][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.705][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.706][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.710][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.711][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.712][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.713][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.716][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.717][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.719][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.723][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.724][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.726][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.731][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.732][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.733][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.738][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.739][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.740][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.745][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.747][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.752][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.753][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.754][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.755][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.759][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.760][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.761][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.763][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.766][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:36.767][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.769][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.770][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 12:18:36.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:36.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:36.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.794][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.797][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.800][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 12:18:36.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.804][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.807][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.810][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 12:18:36.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 12:18:36.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 12:18:36.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.834][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.837][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 12:18:36.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.844][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.847][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 12:18:36.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.853][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.858][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.861][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 12:18:36.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.865][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.869][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.873][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:36.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:36.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.890][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 12:18:36.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 12:18:36.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.901][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 12:18:36.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 12:18:36.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.919][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.923][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.926][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 12:18:36.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 12:18:36.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.946][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:36.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:36.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.949][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.952][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.956][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 12:18:36.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.959][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.963][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.966][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 12:18:36.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.973][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.983][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 12:18:36.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 12:18:36.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.989][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:36.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:36.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:36.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:36.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 12:18:37.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:37.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.003][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 12:18:37.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 12:18:37.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:37.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:37.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.011][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:37.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:37.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:37.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:37.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.018][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:37.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:37.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 12:18:37.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 12:18:37.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.025][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:37.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:37.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.028][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:37.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:37.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:37.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:37.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.035][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:37.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 12:18:37.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:37.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:37.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:37.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:37.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:37.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:37.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:37.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:37.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:37.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:37.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 12:18:37.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 12:18:37.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:37.058][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-03 12:18:37.059][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.062][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.066][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.070][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:37.081][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 12:18:37.083][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:37.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:37.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:37.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:37.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:37.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:37.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:37.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:37.103][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-03 12:18:37.104][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-03 12:18:37.105][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-03 12:18:37.107][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:37.109][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:37.110][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:37.111][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:37.112][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:37.113][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:37.114][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:37.115][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:37.116][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:37.117][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 12:18:37.118][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 12:18:37.120][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.123][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.127][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.130][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.134][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.138][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.142][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:37.145][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 12:18:37.146][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 12:18:37.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:37.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:37.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:37.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:37.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:37.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:37.157][FUN] Functions in observer BiodbConfig: [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[2025-01-03 12:18:37.158][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.162][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.169][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.172][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.176][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.181][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:37.185][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-03 12:18:37.186][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 12:18:37.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:37.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:37.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:37.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:37.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:37.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:37.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 12:18:37.213][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-03 12:18:37.214][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-03 12:18:37.215][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-03 12:18:37.217][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:37.218][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:37.219][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 12:18:37.221][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 12:18:37.222][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 12:18:37.223][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 12:18:37.224][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 12:18:37.226][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 12:18:37.226][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 12:18:37.227][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 12:18:37.228][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 12:18:37.230][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.234][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.237][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.241][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.245][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.249][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.253][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:37.257][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-03 12:18:37.257][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-01-03 12:18:37.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:37.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:37.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:37.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:37.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:37.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:37.268][FUN] Functions in observer BiodbConfig: [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[2025-01-03 12:18:37.269][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.273][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.276][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.280][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.283][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.287][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 12:18:37.290][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 12:18:37.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 12:18:37.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 12:18:37.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 12:18:37.293][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 12:18:37.294][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 12:18:37.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 12:18:37.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:37.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:37.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:37.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:37.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:37.314][FUN] Functions in observer BiodbConfig: [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 [2025-01-03 12:18:37.322][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-03 12:18:37.323][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-03 12:18:37.324][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-03 12:18:37.325][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-03 12:18:37.326][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 12:18:37.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 12:18:37.327][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 12:18:37.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 12:18:37.329][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 12:18:37.329][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  8.802   0.528  11.615

CHECK results for biodbHmdb on kjohnson1

Summary

Command output

Installation output

Tests output

Example timings