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

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.2 (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 merida1

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

raw results

Summary

Package: biodbHmdb

Version: 1.12.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.12.0.tar.gz

StartedAt: 2025-01-03 00:10:04 -0500 (Fri, 03 Jan 2025)

EndedAt: 2025-01-03 00:11:45 -0500 (Fri, 03 Jan 2025)

EllapsedTime: 101.6 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: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.12.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c EntryMaker.cpp -o EntryMaker.o
EntryMaker.cpp:6:5: warning: field 'accession_tag' will be initialized after field 'closed' [-Wreorder-ctor]
    accession_tag("<accession>", "</accession>"),
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    closed(true)
1 warning generated.
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch x86_64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/testthat/include' -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch x86_64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-01-03 00:11:11.506][biodb::testContext]
biodb.INFO [2025-01-03 00:11:11.515][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 00:11:11.517][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-01-03 00:11:11.520][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 00:11:11.525][biodb::testContext]
biodb.INFO [2025-01-03 00:11:11.530][biodb::testThat]
biodb.INFO [2025-01-03 00:11:11.533][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-01-03 00:11:11.536][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:11.540][biodb::testThat]
biodb.INFO [2025-01-03 00:11:11.866][biodb::testContext]
biodb.INFO [2025-01-03 00:11:11.869][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 00:11:11.872][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-03 00:11:11.874][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 00:11:11.877][biodb::testContext]
biodb.INFO [2025-01-03 00:11:11.898][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-03 00:11:11.903][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-03 00:11:11.925][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:11.928][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-03 00:11:11.932][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-03 00:11:11.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:11.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:11.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:11.946][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-03 00:11:12.051][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-03 00:11:12.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.064][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-03 00:11:12.067][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-03 00:11:12.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.083][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-03 00:11:12.086][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-03 00:11:12.090][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-03 00:11:12.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:12.101][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-03 00:11:12.104][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-03 00:11:12.110][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-03 00:11:12.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.123][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-03 00:11:12.126][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-03 00:11:12.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:12.139][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-03 00:11:12.143][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-03 00:11:12.169][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-03 00:11:12.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.181][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-03 00:11:12.185][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-03 00:11:12.192][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.200][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-03 00:11:12.203][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-03 00:11:12.206][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-03 00:11:12.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.216][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-03 00:11:12.218][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-03 00:11:12.221][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-03 00:11:12.225][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-03 00:11:12.229][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-03 00:11:12.232][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-03 00:11:12.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.243][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-03 00:11:12.246][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-03 00:11:12.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.256][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-03 00:11:12.259][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-03 00:11:12.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.268][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.DEBUG[2025-01-03 00:11:12.272][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-03 00:11:12.276][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-03 00:11:12.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.293][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-03 00:11:12.297][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-03 00:11:12.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:12.309][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-03 00:11:12.313][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-03 00:11:12.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.325][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-03 00:11:12.330][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-03 00:11:12.356][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-03 00:11:12.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.370][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-03 00:11:12.374][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-03 00:11:12.377][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-03 00:11:12.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:12.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:12.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:12.401][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-03 00:11:12.535][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.594][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-03 00:11:12.597][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.599][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:12.603][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.606][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.609][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.612][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.614][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 00:11:12.618][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:12.621][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.624][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-03 00:11:12.626][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:12.657][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.659][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.662][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:12.662][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 00:11:12.662][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 00:11:12.662][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 00:11:12.662][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 00:11:12.665][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:12.671][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:12.674][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:12.676][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:12.681][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:12.688][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:12.701][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.703][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.708][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:12.710][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:12.713][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.715][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.719][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-03 00:11:12.724][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.726][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 00:11:12.729][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.731][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:12.734][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.736][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.746][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.750][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.753][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 00:11:12.755][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:12.764][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.766][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-03 00:11:12.769][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:12.771][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.775][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.778][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:12.778][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 00:11:12.778][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 00:11:12.778][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 00:11:12.778][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 00:11:12.781][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:12.784][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:12.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:12.788][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:12.790][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:12.792][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:12.794][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.798][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.800][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:12.803][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:12.805][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.810][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.813][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-03 00:11:12.816][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.819][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-03 00:11:12.822][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.824][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:12.827][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.829][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.833][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.835][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.838][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 00:11:12.840][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:12.844][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.850][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-03 00:11:12.853][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:12.856][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.858][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.861][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.863][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:12.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:12.868][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:12.870][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:12.872][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:12.875][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:12.877][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:12.903][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.906][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:12.908][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:12.910][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:12.913][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:12.916][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-03 00:11:12.953][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.956][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 00:11:12.958][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:12.962][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:12.965][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:13.002][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:13.005][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:13.007][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:13.010][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 00:11:13.012][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:13.022][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:13.025][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-03 00:11:13.027][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:13.029][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:13.032][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:13.034][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:13.036][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:13.039][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:13.041][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:13.043][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:13.051][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:13.054][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:13.057][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:13.059][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:13.068][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:13.070][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:13.072][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:13.075][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:13.083][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:13.085][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.093][FUN] 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 00:11:13.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.097][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 00:11:13.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.103][FUN] 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 00:11:13.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.124][FUN] 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 00:11:13.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.134][FUN] 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 00:11:13.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.146][FUN] 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 00:11:13.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.157][FUN] 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 00:11:13.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.177][FUN] 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 00:11:13.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.188][FUN] 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 00:11:13.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.198][FUN] 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 00:11:13.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.220][FUN] 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 00:11:13.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.231][FUN] 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 00:11:13.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.242][FUN] 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 00:11:13.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.265][FUN] 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 00:11:13.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.280][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-03 00:11:13.289][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-03 00:11:13.293][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-03 00:11:13.296][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-03 00:11:13.299][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-03 00:11:13.302][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 00:11:13.306][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-03 00:11:13.309][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-03 00:11:13.312][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-03 00:11:13.315][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 00:11:13.319][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 00:11:13.322][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-03 00:11:13.325][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-03 00:11:13.329][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-03 00:11:13.332][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-03 00:11:13.336][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 00:11:13.339][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-03 00:11:13.342][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-03 00:11:13.346][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-03 00:11:13.349][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-03 00:11:13.353][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-03 00:11:13.356][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-03 00:11:13.360][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-03 00:11:13.364][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-03 00:11:13.367][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-03 00:11:13.371][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-03 00:11:13.374][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-03 00:11:13.378][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-03 00:11:13.382][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-03 00:11:13.386][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-03 00:11:13.389][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-03 00:11:13.393][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-03 00:11:13.397][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-03 00:11:13.401][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-03 00:11:13.405][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-03 00:11:13.408][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-03 00:11:13.412][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-03 00:11:13.416][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-03 00:11:13.419][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-03 00:11:13.424][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-03 00:11:13.427][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-03 00:11:13.432][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-03 00:11:13.436][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-03 00:11:13.439][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-03 00:11:13.443][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-03 00:11:13.447][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-03 00:11:13.450][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-03 00:11:13.453][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-03 00:11:13.458][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-03 00:11:13.461][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-03 00:11:13.465][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-03 00:11:13.468][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-03 00:11:13.472][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-03 00:11:13.477][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-03 00:11:13.481][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-03 00:11:13.485][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-03 00:11:13.489][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-03 00:11:13.492][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-03 00:11:13.496][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-03 00:11:13.499][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-03 00:11:13.503][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-03 00:11:13.507][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-03 00:11:13.510][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-03 00:11:13.514][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-03 00:11:13.517][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-03 00:11:13.520][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-03 00:11:13.523][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-03 00:11:13.527][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-03 00:11:13.531][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-03 00:11:13.534][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-03 00:11:13.538][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-03 00:11:13.542][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-03 00:11:13.545][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-03 00:11:13.549][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-03 00:11:13.552][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-03 00:11:13.556][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-03 00:11:13.559][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-03 00:11:13.562][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-03 00:11:13.566][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-03 00:11:13.569][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-03 00:11:13.572][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-03 00:11:13.576][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-03 00:11:13.579][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-03 00:11:13.594][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-03 00:11:13.597][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-03 00:11:13.604][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:13.606][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.608][FUN] 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 00:11:13.610][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.637][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 00:11:13.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.652][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 00:11:13.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.667][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 00:11:13.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.681][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 00:11:13.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.714][FUN] 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 00:11:13.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.766][FUN] 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 00:11:13.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.770][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 00:11:13.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.781][FUN] 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 00:11:13.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.795][FUN] 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 00:11:13.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.799][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 00:11:13.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.809][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 00:11:13.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.813][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 00:11:13.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.855][FUN] 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 00:11:13.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:13.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.917][FUN] 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 00:11:13.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:13.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:13.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:13.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:13.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:13.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:13.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:13.936][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 00:11:13.940][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-03 00:11:13.965][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:13.970][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:13.973][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-03 00:11:13.975][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:13.977][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:13.980][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:13.982][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-03 00:11:13.984][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:13.986][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:13.989][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-03 00:11:13.991][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:13.994][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:13.997][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-03 00:11:14.000][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-03 00:11:14.003][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-03 00:11:14.005][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:14.007][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:14.007][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-03 00:11:14.007][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-03 00:11:14.009][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-03 00:11:14.011][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:14.013][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:14.014][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:14.016][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:14.018][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:14.020][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:14.023][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 00:11:14.023][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-03 00:11:14.025][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:14.027][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:14.030][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:14.032][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:14.047][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-03 00:11:14.051][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 00:11:14.055][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 00:11:14.060][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 00:11:14.064][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 00:11:14.108][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:14.112][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-03 00:11:14.121][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:14.129][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:14.137][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:14.140][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:14.143][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-03 00:11:14.146][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-03 00:11:14.148][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 00:11:14.148][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-03 00:11:14.151][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:14.153][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:14.156][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-03 00:11:14.158][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-03 00:11:14.160][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:14.220][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:14.230][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:14.233][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:14.236][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:14.239][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:14.249][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-03 00:11:14.265][biodb::testThat]
biodb.INFO [2025-01-03 00:11:14.268][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-03 00:11:14.270][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:14.272][biodb::testThat]
biodb.TRACE[2025-01-03 00:11:14.280][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-01-03 00:11:14.284][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 00:11:14.291][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 00:11:14.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:14.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:14.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:14.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:14.326][FUN] 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 00:11:14.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:14.331][FUN] Functions in observer BiodbConfig: [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 00:11:14.352][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:14.355][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:14.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.360][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:14.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:14.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.407][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:14.409][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:14.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.416][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.497][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:14.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:14.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.507][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:14.509][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:14.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.514][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.516][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:14.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:14.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.531][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:14.534][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:14.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.546][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.549][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:14.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:14.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.559][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:14.562][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:14.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.567][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:14.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:14.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.583][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:14.586][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:14.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.591][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:14.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:14.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.604][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:14.606][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:14.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.611][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.614][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:14.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:14.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.638][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:14.640][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:14.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.645][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.648][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:14.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:14.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.659][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:14.661][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:14.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.666][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:14.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:14.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.679][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:14.682][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:14.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.686][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.689][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:14.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:14.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.699][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:14.702][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:14.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.706][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.709][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:14.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:14.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.719][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:14.722][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:14.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.726][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.729][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:14.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:14.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.739][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:14.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:14.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.746][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.749][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:14.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:14.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.760][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:14.762][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:14.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.767][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:14.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:14.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.781][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:14.784][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:14.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.789][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:14.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:14.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.802][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:14.805][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:14.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.810][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.812][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:14.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:14.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.822][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:14.825][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:14.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.829][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.832][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:14.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:14.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.842][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:14.845][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:14.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.849][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.853][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:14.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:14.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:14.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:14.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:14.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:14.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:14.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:14.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:14.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:14.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.001][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:15.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:15.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.012][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:15.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:15.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.021][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:15.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:15.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.030][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:15.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:15.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.039][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:15.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:15.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.048][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:15.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:15.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:15.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:15.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:15.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:15.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:15.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:15.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:15.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:15.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:15.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:15.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:15.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:15.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.112][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:15.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:15.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.120][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:15.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:15.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.130][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:15.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:15.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.143][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:15.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:15.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:15.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:15.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.164][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:15.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:15.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.174][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:15.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:15.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.184][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:15.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:15.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.192][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:15.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:15.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.201][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:15.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:15.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.209][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:15.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:15.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.219][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:15.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:15.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.227][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:15.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:15.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.238][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:15.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:15.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.248][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:15.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:15.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:15.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:15.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:15.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:15.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:15.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:15.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.312][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:15.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:15.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.322][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:15.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:15.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.366][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:15.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:15.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:15.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:15.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:15.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:15.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:15.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:15.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:15.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:15.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.416][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:15.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:15.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.426][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:15.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:15.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.436][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:15.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:15.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.446][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:15.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:15.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.459][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:15.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:15.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.475][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:15.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:15.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.490][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:15.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:15.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.499][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:15.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:15.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:15.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:15.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.517][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:15.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:15.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.527][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:15.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:15.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.535][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:15.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.572][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:15.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:15.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:15.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:15.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:15.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:15.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:15.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:15.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:15.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:15.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:15.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:15.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.678][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.688][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.710][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:15.787][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-03 00:11:15.793][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 00:11:15.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 00:11:15.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.803][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 00:11:15.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 00:11:15.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.813][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-03 00:11:15.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-03 00:11:15.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.828][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-03 00:11:15.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-03 00:11:15.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.892][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:15.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:15.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.971][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.981][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:15.990][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:15.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:15.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:16.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:16.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:16.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:16.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:16.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:16.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.045][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:16.047][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:16.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.052][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:16.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:16.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.082][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.102][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.112][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.123][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.126][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.130][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.133][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:16.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.189][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.191][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.194][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:16.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.224][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.234][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.244][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.255][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.258][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.263][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.265][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:16.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.325][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.333][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:16.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.365][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.385][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.395][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.400][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.403][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:16.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:16.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:16.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.446][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:16.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:16.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:16.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:16.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.474][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:16.477][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:16.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.482][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.484][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:16.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:16.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.516][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:16.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:16.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.526][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:16.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:16.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.537][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:16.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:16.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.549][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:16.552][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:16.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.557][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.560][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:16.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:16.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.591][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:16.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:16.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:16.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:16.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.611][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:16.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:16.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.621][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:16.624][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:16.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.629][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.631][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:16.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:16.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.662][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.672][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.682][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.692][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.694][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.699][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.701][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:16.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.759][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.761][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.766][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:16.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.796][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.806][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.816][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.832][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.835][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.839][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.842][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:16.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.869][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.878][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.887][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.897][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.900][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.904][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.906][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:16.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.935][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.945][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.955][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.965][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.968][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.972][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:16.974][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:16.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:16.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.004][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:17.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:17.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.013][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:17.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:17.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:17.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:17.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.032][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:17.034][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:17.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.039][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.041][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:17.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:17.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:17.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:17.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:17.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:17.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:17.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:17.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.096][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:17.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:17.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.104][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:17.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:17.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.165][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.168][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.181][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.213][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.223][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.233][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.243][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.245][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.250][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.253][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.283][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:17.286][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:17.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.291][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.302][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:17.305][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:17.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.309][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.321][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.324][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.328][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.340][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:17.343][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:17.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.347][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.359][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:17.361][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:17.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.366][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.378][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:17.380][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:17.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.385][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.396][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:17.398][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:17.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.403][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.414][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:17.416][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:17.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.454][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.521][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:17.523][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:17.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.528][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.540][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:17.543][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:17.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.548][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.563][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:17.571][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:17.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.575][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.588][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.591][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:17.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.595][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.607][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:17.609][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:17.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.614][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:17.628][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:17.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.632][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.652][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:17.654][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:17.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.659][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.670][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:17.673][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:17.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.677][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.688][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:17.691][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:17.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.696][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:17.710][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:17.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.715][ef$get] fields variable is a list.
biodb.INFO [2025-01-03 00:11:17.734][biodb::testThat]
biodb.INFO [2025-01-03 00:11:17.736][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-03 00:11:17.739][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:17.741][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:17.776][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-03 00:11:17.790][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 00:11:17.799][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:17.803][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 00:11:17.807][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-03 00:11:17.811][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-03 00:11:17.815][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 00:11:17.818][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 00:11:17.884][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 00:11:17.886][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 00:11:17.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:17.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:17.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:17.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:17.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:17.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:17.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 00:11:17.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:17.924][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:17.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.929][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:17.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:17.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.942][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:17.945][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:17.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.950][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.954][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:17.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:17.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.965][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:17.967][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:17.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.972][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.975][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:17.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:17.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:17.985][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.987][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:17.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:17.992][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.004][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:18.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:18.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.020][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.034][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.037][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.041][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.054][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.057][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.062][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.065][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.075][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.078][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.082][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.085][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.095][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.098][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.102][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.106][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.117][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.119][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.124][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.128][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.138][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:18.140][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:18.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.143][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:18.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:18.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.155][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:18.157][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:18.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.162][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:18.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:18.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.175][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.177][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.182][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.196][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.198][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.203][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.216][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.219][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.223][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.236][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:18.238][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:18.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.243][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.246][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:18.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:18.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.257][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:18.260][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:18.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.265][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:18.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:18.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.280][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:18.282][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:18.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.287][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.291][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:18.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:18.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:18.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:18.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:18.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:18.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:18.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:18.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.333][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:18.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:18.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.350][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:18.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:18.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.360][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:18.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:18.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.370][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:18.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:18.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.381][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:18.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:18.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.391][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:18.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:18.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:18.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:18.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.473][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.483][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:18.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.493][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.504][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.515][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:18.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.525][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:18.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:18.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.535][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:18.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:18.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.546][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:18.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:18.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.557][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:18.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:18.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.567][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:18.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:18.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.579][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:18.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:18.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.590][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:18.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:18.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.600][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:18.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:18.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:18.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:18.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:18.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:18.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:18.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:18.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:18.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:18.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.680][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.690][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.707][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:18.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:18.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.755][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.765][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.774][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.783][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.792][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:18.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.802][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:18.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:18.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.811][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:18.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:18.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.821][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:18.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:18.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.830][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:18.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:18.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.840][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:18.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:18.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.849][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:18.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:18.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.859][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:18.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.900][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:18.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:18.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.935][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.946][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:18.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:18.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.968][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:18.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:18.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.978][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:18.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:18.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:18.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:18.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:18.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:18.996][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:18.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:19.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:19.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:19.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:19.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:19.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:19.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:19.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:19.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:19.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:19.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:19.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:19.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:19.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.068][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-03 00:11:19.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-03 00:11:19.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-03 00:11:19.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-03 00:11:19.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-03 00:11:19.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-03 00:11:19.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-03 00:11:19.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-03 00:11:19.115][biodb::testThat]
biodb.INFO [2025-01-03 00:11:19.118][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-03 00:11:19.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:19.123][biodb::testThat]
biodb.TRACE[2025-01-03 00:11:19.130][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:19.133][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:19.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.138][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.141][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-01-03 00:11:19.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:19.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:19.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:19.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:19.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:19.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:19.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.254][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-01-03 00:11:19.257][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-03 00:11:19.259][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-03 00:11:19.262][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-03 00:11:19.266][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.269][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.273][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:19.276][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.278][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:19.282][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 00:11:19.285][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:19.287][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:19.289][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:19.292][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 00:11:19.294][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 00:11:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:19.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:19.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:19.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.317][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:19.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:19.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.327][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:19.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:19.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.337][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 00:11:19.339][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 00:11:19.341][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-03 00:11:19.371][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:19.373][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:19.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.378][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.380][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-01-03 00:11:19.415][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:19.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:19.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.425][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:19.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:19.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.434][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:19.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:19.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.449][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 00:11:19.597][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-03 00:11:19.600][private$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 00:11:19.602][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-03 00:11:19.642][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.645][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.649][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:19.652][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.654][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:19.705][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 00:11:19.708][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:19.711][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:19.714][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:19.716][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 00:11:19.718][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 00:11:19.722][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:19.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:19.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.732][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:19.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:19.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.741][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:19.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:19.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.751][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:19.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:19.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.761][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 00:11:19.764][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 00:11:19.766][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-03 00:11:19.794][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.797][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.802][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.805][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-01-03 00:11:19.835][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.845][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.854][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.869][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-01-03 00:11:19.872][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-01-03 00:11:19.875][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-03 00:11:19.877][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-03 00:11:19.881][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.884][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.887][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:19.890][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:19.893][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:19.896][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 00:11:19.898][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:19.901][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:19.903][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:19.905][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 00:11:19.907][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 00:11:19.912][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.922][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.932][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:19.942][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:19.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:19.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:19.952][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 00:11:19.954][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 00:11:19.956][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-01-03 00:11:19.993][biodb::testThat]
biodb.INFO [2025-01-03 00:11:19.995][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-03 00:11:19.997][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:19.999][biodb::testThat]
biodb.TRACE[2025-01-03 00:11:20.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:20.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:20.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:20.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:20.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:20.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:20.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:20.089][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-03 00:11:20.091][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-03 00:11:20.094][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-03 00:11:20.098][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:20.101][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:20.106][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:20.109][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:20.112][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:20.116][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 00:11:20.118][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:20.121][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:20.124][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:20.126][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 00:11:20.128][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 00:11:20.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:20.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:20.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:20.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:20.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:20.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:20.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:20.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:20.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:20.170][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 00:11:20.172][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-03 00:11:20.208][biodb::testThat]
biodb.INFO [2025-01-03 00:11:20.210][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-03 00:11:20.212][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:20.214][biodb::testThat]
biodb.TRACE[2025-01-03 00:11:20.264][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 00:11:20.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 00:11:20.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.274][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 00:11:20.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 00:11:20.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.283][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-03 00:11:20.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-03 00:11:20.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.291][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-03 00:11:20.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-03 00:11:20.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.423][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 00:11:20.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 00:11:20.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.432][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-03 00:11:20.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-03 00:11:20.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.442][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-03 00:11:20.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-03 00:11:20.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:20.451][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-03 00:11:20.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-03 00:11:20.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:20.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-03 00:11:20.472][biodb::testThat]
biodb.INFO [2025-01-03 00:11:20.474][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-03 00:11:20.476][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:20.478][biodb::testThat]
biodb.INFO [2025-01-03 00:11:20.496][biodb::testThat]
biodb.INFO [2025-01-03 00:11:20.498][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-03 00:11:20.500][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:20.502][biodb::testThat]
biodb.INFO [2025-01-03 00:11:20.521][biodb::testThat]
biodb.INFO [2025-01-03 00:11:20.523][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-03 00:11:20.525][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:20.527][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:20.534][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-03 00:11:26.256][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-03 00:11:26.354][biodb::testThat]
biodb.INFO [2025-01-03 00:11:26.357][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-03 00:11:26.359][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:26.362][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:27.903][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-03 00:11:27.985][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:27.988][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:27.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:27.993][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:27.995][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:27.998][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:28.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.002][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.005][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:28.008][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:28.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.012][ef$get] fields variable is a list.
biodb.INFO [2025-01-03 00:11:28.015][biodb::testThat]
biodb.INFO [2025-01-03 00:11:28.018][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-03 00:11:28.020][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:28.022][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:28.026][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-03 00:11:28.172][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 00:11:28.176][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.180][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 00:11:28.225][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-03 00:11:28.228][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-03 00:11:28.230][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-03 00:11:28.233][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 00:11:28.236][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.239][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 00:11:28.242][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 00:11:28.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:28.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:28.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:28.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:28.263][FUN] 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 00:11:28.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:28.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 00:11:28.272][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:28.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:28.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.281][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:28.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:28.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:28.389][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-03 00:11:28.391][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-03 00:11:28.433][biodb::testThat]
biodb.INFO [2025-01-03 00:11:28.436][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 00:11:28.438][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:28.440][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:28.462][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-01-03 00:11:28.465][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-01-03 00:11:28.467][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 00:11:28.470][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.474][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 00:11:28.479][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-01-03 00:11:28.481][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-03 00:11:28.484][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-03 00:11:28.486][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 00:11:28.490][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.492][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 00:11:28.495][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 00:11:28.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:28.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:28.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:28.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:28.516][FUN] 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 00:11:28.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:28.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 00:11:28.524][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:28.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:28.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.534][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:28.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:28.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:28.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:28.599][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-03 00:11:28.601][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-03 00:11:28.603][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-01-03 00:11:28.642][biodb::testThat]
biodb.INFO [2025-01-03 00:11:28.644][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-03 00:11:28.646][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:28.648][biodb::testThat]
biodb.INFO [2025-01-03 00:11:28.704][biodb::testThat]
biodb.INFO [2025-01-03 00:11:28.707][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-03 00:11:28.709][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:28.711][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:28.717][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.721][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.724][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:28.728][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.731][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:28.734][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 00:11:28.737][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:28.739][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:28.742][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-01-03 00:11:28.760][biodb::testThat]
biodb.INFO [2025-01-03 00:11:28.763][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-03 00:11:28.765][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:28.767][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:28.772][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.776][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.779][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:28.783][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:28.785][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:28.788][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 00:11:28.791][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:28.793][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:28.795][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-01-03 00:11:28.817][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:28.820][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:28.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.825][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.828][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:28.831][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:28.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.835][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:28.837][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:28.840][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:28.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:28.844][ef$get] fields variable is a list.
biodb.INFO [2025-01-03 00:11:28.847][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-03 00:11:28.849][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-03 00:11:28.871][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-03 00:11:28.873][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-03 00:11:28.876][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:28.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:28.880][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:28.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:28.884][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:28.887][FUN] Functions in observer BiodbConfig: [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 00:11:28.895][biodb::testContext]
biodb.INFO [2025-01-03 00:11:28.898][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 00:11:28.900][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-01-03 00:11:28.902][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 00:11:28.905][biodb::testContext]
biodb.INFO [2025-01-03 00:11:28.922][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-03 00:11:28.926][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-03 00:11:28.935][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:28.937][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-03 00:11:28.940][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-03 00:11:28.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:28.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:28.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:28.948][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-03 00:11:28.951][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-03 00:11:28.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:28.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:28.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:28.959][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-03 00:11:28.962][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-03 00:11:28.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:28.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:28.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:28.970][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-03 00:11:28.973][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-03 00:11:28.975][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-03 00:11:28.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:28.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:28.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:28.984][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-03 00:11:28.987][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-03 00:11:28.989][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-03 00:11:28.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:28.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:28.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:28.999][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-03 00:11:29.001][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-03 00:11:29.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:29.010][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-03 00:11:29.013][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-03 00:11:29.015][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-03 00:11:29.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.024][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-03 00:11:29.027][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-03 00:11:29.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.036][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-03 00:11:29.038][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-03 00:11:29.041][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-03 00:11:29.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.050][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-03 00:11:29.052][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-03 00:11:29.055][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-03 00:11:29.057][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-03 00:11:29.060][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-03 00:11:29.062][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-03 00:11:29.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.071][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-03 00:11:29.074][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-03 00:11:29.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.083][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-03 00:11:29.086][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-03 00:11:29.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.095][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-03 00:11:29.097][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-03 00:11:29.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.106][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-03 00:11:29.108][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-03 00:11:29.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.116][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-03 00:11:29.119][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-03 00:11:29.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.128][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-03 00:11:29.130][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-03 00:11:29.149][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-03 00:11:29.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.158][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-03 00:11:29.160][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-03 00:11:29.163][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-03 00:11:29.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.172][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-03 00:11:29.176][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.179][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-03 00:11:29.182][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.184][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:29.186][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.189][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.191][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.194][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.205][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 00:11:29.208][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:29.211][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.214][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-03 00:11:29.217][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:29.219][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.222][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.224][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:29.224][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 00:11:29.224][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 00:11:29.224][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 00:11:29.224][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 00:11:29.227][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:29.229][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:29.232][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:29.234][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:29.236][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:29.239][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:29.241][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.244][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.247][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:29.249][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:29.252][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.254][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.257][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-03 00:11:29.262][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.265][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 00:11:29.267][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.269][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:29.272][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.275][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.277][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.280][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.283][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 00:11:29.286][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:29.288][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.291][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-03 00:11:29.294][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:29.296][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.299][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.301][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:29.301][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 00:11:29.301][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 00:11:29.301][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 00:11:29.301][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 00:11:29.304][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:29.306][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:29.308][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:29.311][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:29.313][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:29.315][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:29.317][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.320][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.322][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:29.324][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:29.326][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.329][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.332][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-03 00:11:29.337][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.340][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-03 00:11:29.342][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.345][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:29.348][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.350][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.353][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.355][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.358][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 00:11:29.361][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:29.363][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.366][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-03 00:11:29.369][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:29.371][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.374][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.376][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.379][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:29.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:29.383][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:29.386][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:29.388][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:29.390][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:29.393][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.395][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.398][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:29.400][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:29.402][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.405][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.408][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-03 00:11:29.412][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.415][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 00:11:29.417][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.420][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:29.422][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.425][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.428][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.430][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.433][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 00:11:29.435][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:29.438][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.441][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-03 00:11:29.443][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:29.446][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.448][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:29.451][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.453][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:29.456][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:29.458][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:29.461][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:29.463][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:29.466][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:29.468][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:29.470][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.473][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:29.482][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:29.485][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:29.487][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:29.490][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:29.492][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.500][FUN] 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 00:11:29.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:29.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.521][FUN] 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 00:11:29.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:29.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.532][FUN] 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 00:11:29.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.536][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 00:11:29.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.542][FUN] 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 00:11:29.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:29.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.553][FUN] 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 00:11:29.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.563][FUN] 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 00:11:29.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:29.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.574][FUN] 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 00:11:29.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.586][FUN] 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 00:11:29.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:29.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:29.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:29.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:29.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.618][FUN] 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 00:11:29.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.622][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 00:11:29.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.630][FUN] 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 00:11:29.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.634][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 00:11:29.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:29.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.647][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 00:11:29.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.654][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 00:11:29.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:29.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.667][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 00:11:29.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.671][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 00:11:29.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:29.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:29.678][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 00:11:29.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:29.683][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 00:11:29.685][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-03 00:11:29.689][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-03 00:11:29.692][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-03 00:11:29.696][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-03 00:11:29.700][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-03 00:11:29.703][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 00:11:29.706][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-03 00:11:29.710][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-03 00:11:29.713][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-03 00:11:29.717][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 00:11:29.720][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 00:11:29.724][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-03 00:11:29.727][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-03 00:11:29.730][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-03 00:11:29.733][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-03 00:11:29.744][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 00:11:29.748][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-03 00:11:29.752][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-03 00:11:29.755][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-03 00:11:29.759][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-03 00:11:29.762][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-03 00:11:29.765][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-03 00:11:29.769][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-03 00:11:29.772][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-03 00:11:29.775][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-03 00:11:29.779][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-03 00:11:29.783][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-03 00:11:29.786][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-03 00:11:29.790][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-03 00:11:29.793][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-03 00:11:29.797][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-03 00:11:29.800][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-03 00:11:29.804][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-03 00:11:29.807][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-03 00:11:29.811][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-03 00:11:29.815][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-03 00:11:29.818][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-03 00:11:29.822][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-03 00:11:29.825][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-03 00:11:29.829][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-03 00:11:29.833][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-03 00:11:29.836][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-03 00:11:29.839][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-03 00:11:29.842][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-03 00:11:29.845][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-03 00:11:29.848][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-03 00:11:29.851][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-03 00:11:29.854][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-03 00:11:29.857][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-03 00:11:29.860][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-03 00:11:29.864][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-03 00:11:29.867][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-03 00:11:29.870][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-03 00:11:29.874][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-03 00:11:29.877][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-03 00:11:29.880][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-03 00:11:29.884][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-03 00:11:29.887][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-03 00:11:29.891][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-03 00:11:29.894][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-03 00:11:29.898][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-03 00:11:29.902][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-03 00:11:29.905][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-03 00:11:29.909][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-03 00:11:29.913][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-03 00:11:29.916][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-03 00:11:29.920][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-03 00:11:29.923][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-03 00:11:29.927][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-03 00:11:29.930][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-03 00:11:29.934][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-03 00:11:29.937][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-03 00:11:29.941][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-03 00:11:29.944][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-03 00:11:29.947][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-03 00:11:29.951][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-03 00:11:29.954][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-03 00:11:29.957][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-03 00:11:29.960][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-03 00:11:29.964][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-03 00:11:29.967][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-03 00:11:29.971][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-03 00:11:29.974][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-03 00:11:29.990][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-03 00:11:30.001][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-03 00:11:30.004][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:30.006][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.008][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 00:11:30.010][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:30.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:30.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:30.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.066][FUN] 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 00:11:30.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:30.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.079][FUN] 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 00:11:30.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.093][FUN] 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 00:11:30.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.097][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 00:11:30.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.107][FUN] 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 00:11:30.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:30.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:30.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.136][FUN] 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 00:11:30.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:30.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:30.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.163][FUN] 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 00:11:30.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:30.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.177][FUN] 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 00:11:30.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:30.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.191][FUN] 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 00:11:30.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:30.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.205][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 00:11:30.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.220][FUN] 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 00:11:30.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:30.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.242][FUN] 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 00:11:30.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:30.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:30.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.258][FUN] 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 00:11:30.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:30.266][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-03 00:11:30.270][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:30.275][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:30.277][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-03 00:11:30.280][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:30.282][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:30.285][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:30.287][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-03 00:11:30.289][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:30.292][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:30.294][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-03 00:11:30.297][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:30.299][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:30.302][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-03 00:11:30.304][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-03 00:11:30.307][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-03 00:11:30.310][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:30.312][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:30.312][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-03 00:11:30.312][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-03 00:11:30.315][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-03 00:11:30.317][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:30.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:30.322][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:30.324][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:30.326][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:30.329][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:30.331][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 00:11:30.331][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-03 00:11:30.334][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:30.336][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:30.338][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:30.341][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:30.344][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-03 00:11:30.348][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 00:11:30.352][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 00:11:30.355][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 00:11:30.359][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 00:11:30.368][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:30.370][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-03 00:11:30.374][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:30.377][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:30.381][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:30.384][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:30.388][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-03 00:11:30.390][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-03 00:11:30.393][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 00:11:30.393][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-03 00:11:30.396][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:30.398][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:30.400][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-03 00:11:30.402][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-03 00:11:30.408][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:30.411][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:30.414][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:30.417][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:30.421][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:30.424][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:30.427][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-03 00:11:30.431][biodb::testThat]
biodb.INFO [2025-01-03 00:11:30.433][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-01-03 00:11:30.435][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:30.438][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:30.447][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:30.450][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:30.454][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:30.458][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:30.461][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:30.465][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 00:11:30.467][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:30.470][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:30.472][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:30.479][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-03 00:11:30.492][biodb::testThat]
biodb.INFO [2025-01-03 00:11:30.494][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-01-03 00:11:30.497][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:30.499][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:30.503][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-03 00:11:30.506][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 00:11:30.510][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:30.526][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 00:11:30.531][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-03 00:11:30.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-03 00:11:30.540][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-03 00:11:30.543][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 00:11:30.545][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 00:11:30.548][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 00:11:30.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:30.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:30.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:30.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:30.573][FUN] 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 00:11:30.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:30.577][FUN] Functions in observer BiodbConfig: [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 00:11:30.584][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:30.587][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:30.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.592][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:30.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:30.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.606][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:30.608][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:30.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.613][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.618][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:30.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:30.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.631][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:30.634][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:30.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.639][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.642][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:30.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:30.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.654][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:30.657][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:30.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.662][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.665][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:30.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:30.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:30.679][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:30.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.692][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:30.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:30.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.709][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:30.712][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:30.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.717][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:30.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:30.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.731][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:30.734][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:30.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.739][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.742][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:30.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:30.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.752][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:30.755][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:30.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.760][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:30.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:30.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.772][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:30.774][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:30.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.779][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.782][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:30.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:30.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.792][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:30.795][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:30.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.800][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.803][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:30.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:30.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.813][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:30.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:30.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.828][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.831][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:30.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:30.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.841][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:30.844][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:30.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.848][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:30.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:30.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.861][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:30.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:30.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.870][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:30.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:30.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.883][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:30.885][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:30.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.890][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:30.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:30.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.904][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:30.907][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:30.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.912][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.915][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:30.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:30.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.936][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:30.940][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:30.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.945][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.948][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:30.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:30.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.959][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:30.961][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:30.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.966][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:30.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:30.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.979][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:30.981][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:30.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.986][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:30.989][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:30.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:30.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:30.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.032][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:31.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:31.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.043][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:31.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:31.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.052][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:31.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:31.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.062][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:31.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:31.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.098][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:31.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.107][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:31.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:31.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:31.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:31.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:31.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:31.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:31.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:31.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:31.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:31.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:31.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:31.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:31.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:31.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.184][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:31.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:31.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.193][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:31.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:31.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.202][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:31.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:31.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.211][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:31.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:31.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.221][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:31.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:31.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.231][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:31.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:31.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:31.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.250][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:31.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.260][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:31.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:31.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.270][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:31.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:31.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.279][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:31.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:31.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.289][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:31.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:31.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:31.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:31.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:31.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:31.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.317][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:31.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:31.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:31.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:31.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:31.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:31.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.345][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:31.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:31.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.391][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:31.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:31.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.400][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:31.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:31.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.409][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:31.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:31.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:31.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:31.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:31.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:31.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:31.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:31.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:31.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:31.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:31.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:31.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:31.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:31.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.477][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:31.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:31.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.487][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:31.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:31.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.497][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:31.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:31.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.508][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:31.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.517][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:31.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:31.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.527][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:31.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:31.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.537][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:31.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:31.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.547][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:31.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:31.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.556][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:31.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:31.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.567][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:31.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.608][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:31.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:31.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:31.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:31.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:31.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:31.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:31.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:31.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:31.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:31.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:31.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:31.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.678][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:31.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:31.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.688][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:31.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:31.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.707][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:31.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:31.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:31.778][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-03 00:11:31.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:31.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:31.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:31.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:31.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-03 00:11:31.824][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-03 00:11:31.827][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-03 00:11:31.829][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-03 00:11:31.832][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-03 00:11:31.834][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:31.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:31.838][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:31.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:31.842][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-03 00:11:31.853][biodb::testContext]
biodb.INFO [2025-01-03 00:11:31.855][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 00:11:31.858][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-01-03 00:11:31.860][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-03 00:11:31.863][biodb::testContext]
biodb.INFO [2025-01-03 00:11:31.872][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-03 00:11:31.876][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-03 00:11:31.883][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:31.885][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-03 00:11:31.888][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-03 00:11:31.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:31.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:31.895][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-03 00:11:31.898][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-03 00:11:31.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:31.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:31.906][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-03 00:11:31.909][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-03 00:11:31.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:31.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:31.925][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-03 00:11:31.928][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-03 00:11:31.930][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-03 00:11:31.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:31.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:31.939][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-03 00:11:31.941][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-03 00:11:31.943][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-03 00:11:31.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:31.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:31.952][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-03 00:11:31.955][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-03 00:11:31.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:31.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:31.964][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-03 00:11:31.967][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-03 00:11:31.970][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-03 00:11:31.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:31.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:31.980][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-03 00:11:31.982][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-03 00:11:31.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:31.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:31.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:31.992][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-03 00:11:31.995][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-03 00:11:31.998][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-03 00:11:32.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.007][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-03 00:11:32.010][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-03 00:11:32.013][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-03 00:11:32.015][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-03 00:11:32.018][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-03 00:11:32.021][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-03 00:11:32.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.029][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-03 00:11:32.032][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-03 00:11:32.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:32.041][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-03 00:11:32.043][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-03 00:11:32.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.052][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-03 00:11:32.054][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-03 00:11:32.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.063][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-03 00:11:32.065][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-03 00:11:32.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.074][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-03 00:11:32.076][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-03 00:11:32.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.086][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-03 00:11:32.088][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-03 00:11:32.110][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-03 00:11:32.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.118][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-03 00:11:32.121][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-03 00:11:32.123][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-03 00:11:32.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:32.133][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-03 00:11:32.137][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.139][self$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 00:11:32.142][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.144][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:32.147][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.150][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.152][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.154][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.157][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 00:11:32.159][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:32.162][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.165][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-03 00:11:32.167][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:32.169][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.172][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.175][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:32.175][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 00:11:32.175][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 00:11:32.175][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 00:11:32.175][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 00:11:32.178][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:32.180][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:32.182][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:32.185][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:32.187][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:32.188][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:32.199][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.202][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.204][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:32.206][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:32.209][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.211][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.214][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-03 00:11:32.218][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.221][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 00:11:32.223][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.226][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:32.228][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.230][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.233][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.235][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.238][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 00:11:32.240][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:32.242][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.245][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-03 00:11:32.247][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:32.250][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.252][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.254][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:32.254][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-03 00:11:32.254][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-03 00:11:32.254][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-03 00:11:32.254][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-03 00:11:32.257][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:32.259][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:32.262][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:32.264][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:32.267][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:32.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:32.271][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.274][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.276][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:32.278][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:32.280][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.283][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.286][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-03 00:11:32.290][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.293][self$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 00:11:32.295][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.298][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:32.300][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.302][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.305][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.307][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.310][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-03 00:11:32.312][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:32.315][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.318][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-03 00:11:32.320][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:32.323][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.325][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.327][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.330][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:32.332][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:32.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:32.337][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:32.339][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:32.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:32.344][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.346][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.349][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:32.351][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:32.353][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.356][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.359][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-03 00:11:32.364][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.367][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-03 00:11:32.370][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.373][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:32.375][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.379][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.381][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.383][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.386][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-03 00:11:32.389][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:32.392][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.394][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-03 00:11:32.397][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:32.400][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.402][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:32.405][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.408][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-03 00:11:32.411][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:32.413][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:32.415][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:32.418][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:32.420][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:32.422][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:32.425][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.427][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:32.430][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:32.432][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:32.435][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:32.438][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:32.440][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:32.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:32.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:32.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:32.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:32.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.478][FUN] 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 00:11:32.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.483][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 00:11:32.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:32.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.500][FUN] 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 00:11:32.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.511][FUN] 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 00:11:32.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.520][FUN] 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 00:11:32.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:32.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.541][FUN] 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 00:11:32.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.552][FUN] 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 00:11:32.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:32.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.562][FUN] 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 00:11:32.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.573][FUN] 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 00:11:32.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:32.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.583][FUN] 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 00:11:32.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:32.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.600][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 00:11:32.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.606][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 00:11:32.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.619][FUN] 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 00:11:32.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.623][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 00:11:32.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:32.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.633][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 00:11:32.636][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-03 00:11:32.639][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-03 00:11:32.642][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-03 00:11:32.646][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-03 00:11:32.650][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-03 00:11:32.653][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 00:11:32.657][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-03 00:11:32.661][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-03 00:11:32.664][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-03 00:11:32.668][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 00:11:32.672][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 00:11:32.675][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-03 00:11:32.678][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-03 00:11:32.682][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-03 00:11:32.685][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-03 00:11:32.689][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 00:11:32.692][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-03 00:11:32.696][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-03 00:11:32.700][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-03 00:11:32.704][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-03 00:11:32.715][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-03 00:11:32.719][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-03 00:11:32.722][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-03 00:11:32.726][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-03 00:11:32.729][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-03 00:11:32.733][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-03 00:11:32.736][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-03 00:11:32.739][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-03 00:11:32.743][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-03 00:11:32.746][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-03 00:11:32.749][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-03 00:11:32.753][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-03 00:11:32.755][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-03 00:11:32.759][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-03 00:11:32.762][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-03 00:11:32.766][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-03 00:11:32.769][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-03 00:11:32.772][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-03 00:11:32.776][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-03 00:11:32.779][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-03 00:11:32.783][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-03 00:11:32.786][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-03 00:11:32.789][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-03 00:11:32.793][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-03 00:11:32.796][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-03 00:11:32.799][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-03 00:11:32.802][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-03 00:11:32.806][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-03 00:11:32.809][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-03 00:11:32.812][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-03 00:11:32.816][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-03 00:11:32.819][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-03 00:11:32.822][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-03 00:11:32.826][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-03 00:11:32.830][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-03 00:11:32.834][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-03 00:11:32.837][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-03 00:11:32.841][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-03 00:11:32.844][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-03 00:11:32.848][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-03 00:11:32.852][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-03 00:11:32.855][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-03 00:11:32.858][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-03 00:11:32.862][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-03 00:11:32.865][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-03 00:11:32.869][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-03 00:11:32.872][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-03 00:11:32.876][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-03 00:11:32.879][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-03 00:11:32.883][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-03 00:11:32.886][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-03 00:11:32.889][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-03 00:11:32.892][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-03 00:11:32.896][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-03 00:11:32.899][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-03 00:11:32.903][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-03 00:11:32.906][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-03 00:11:32.910][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-03 00:11:32.914][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-03 00:11:32.917][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-03 00:11:32.920][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-03 00:11:32.924][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-03 00:11:32.927][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-03 00:11:32.931][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-03 00:11:32.934][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-03 00:11:32.937][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-03 00:11:32.939][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.941][FUN] 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 00:11:32.944][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.946][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 00:11:32.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:32.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:32.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.965][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 00:11:32.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:32.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:32.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.979][FUN] 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 00:11:32.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:32.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:32.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:32.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:32.993][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 00:11:32.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:32.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:32.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.007][FUN] 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 00:11:33.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:33.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.021][FUN] 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 00:11:33.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:33.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.035][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 00:11:33.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:33.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.050][FUN] 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 00:11:33.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:33.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:33.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:33.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:33.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:33.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.093][FUN] 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 00:11:33.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.097][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 00:11:33.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.107][FUN] 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 00:11:33.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:33.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.122][FUN] 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 00:11:33.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:33.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.136][FUN] 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 00:11:33.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:33.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:33.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:33.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.165][FUN] 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 00:11:33.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:33.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.182][FUN] 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 00:11:33.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:33.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-03 00:11:33.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:33.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:33.214][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-03 00:11:33.218][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:33.223][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:33.225][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-03 00:11:33.228][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:33.230][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-03 00:11:33.232][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:33.235][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-03 00:11:33.237][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:33.239][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-03 00:11:33.242][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-03 00:11:33.244][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-03 00:11:33.247][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:33.249][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-03 00:11:33.252][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-03 00:11:33.254][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-03 00:11:33.258][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-03 00:11:33.260][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-03 00:11:33.260][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-03 00:11:33.260][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-03 00:11:33.263][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-03 00:11:33.265][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:33.268][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:33.270][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-03 00:11:33.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-03 00:11:33.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-03 00:11:33.277][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-03 00:11:33.279][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 00:11:33.279][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-03 00:11:33.282][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:33.284][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:33.287][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-03 00:11:33.289][self$setPropertyValue]
biodb.DEBUG[2025-01-03 00:11:33.292][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-03 00:11:33.296][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-03 00:11:33.299][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-03 00:11:33.303][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-03 00:11:33.306][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-03 00:11:33.313][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:33.315][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-03 00:11:33.318][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:33.322][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:33.324][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:33.327][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:33.330][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-03 00:11:33.332][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-03 00:11:33.335][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-03 00:11:33.335][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-03 00:11:33.337][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-03 00:11:33.339][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-03 00:11:33.341][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-03 00:11:33.343][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 00:11:33.346][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-03 00:11:33.349][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:33.352][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:33.354][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:33.358][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-03 00:11:33.360][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-03 00:11:33.363][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-03 00:11:33.366][biodb::testThat]
biodb.INFO [2025-01-03 00:11:33.368][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-01-03 00:11:33.370][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-03 00:11:33.372][biodb::testThat]
biodb.DEBUG[2025-01-03 00:11:33.376][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-03 00:11:33.379][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-03 00:11:33.381][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-03 00:11:33.388][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:33.391][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:33.395][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:33.398][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:33.400][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:33.403][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-03 00:11:33.406][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:33.408][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:33.411][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:33.413][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 00:11:33.415][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-01-03 00:11:33.419][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-03 00:11:33.421][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 00:11:33.425][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:33.429][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 00:11:33.433][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-03 00:11:33.436][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-03 00:11:33.440][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 00:11:33.451][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 00:11:33.453][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 00:11:33.456][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 00:11:33.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:33.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:33.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:33.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:33.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:33.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:33.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 00:11:33.490][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:33.492][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:33.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.497][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:33.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:33.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.508][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:33.510][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:33.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.514][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.516][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:33.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:33.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.526][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.528][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.532][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.535][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.545][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.548][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.552][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.555][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.564][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.567][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.571][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.583][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.586][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.590][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.602][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:33.605][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:33.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.609][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.612][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:33.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:33.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.622][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:33.624][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:33.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.628][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.631][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:33.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:33.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.640][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:33.642][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:33.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.647][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.649][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:33.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:33.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.658][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:33.661][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:33.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.665][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.668][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:33.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:33.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.677][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:33.679][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:33.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.691][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:33.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:33.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.703][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:33.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:33.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.710][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:33.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:33.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.722][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:33.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:33.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.728][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.731][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:33.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:33.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.741][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:33.743][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:33.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.747][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:33.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:33.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.759][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:33.762][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:33.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.766][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.769][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:33.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:33.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.778][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:33.781][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:33.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.785][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.788][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:33.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:33.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.797][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:33.800][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:33.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.804][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.807][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:33.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:33.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.816][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:33.819][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:33.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.823][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.826][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:33.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:33.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:33.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:33.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:33.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:33.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:33.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:33.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.864][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.874][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.883][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:33.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.893][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.901][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.908][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:33.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:33.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:33.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.987][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:33.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:33.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:33.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:33.996][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:33.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:34.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:34.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:34.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.013][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.021][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.031][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.040][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:34.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:34.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.049][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:34.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:34.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.059][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:34.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:34.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.067][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:34.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:34.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.076][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:34.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:34.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.086][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:34.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:34.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.095][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:34.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:34.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.105][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:34.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:34.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.114][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:34.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:34.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:34.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:34.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:34.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:34.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:34.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:34.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.187][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.197][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.206][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.274][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.283][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.293][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.302][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.312][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.321][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:34.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:34.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.339][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:34.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:34.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.349][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:34.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:34.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.358][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:34.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.394][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:34.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.430][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.461][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:34.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:34.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:34.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:34.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.490][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:34.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:34.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:34.560][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-03 00:11:34.563][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:34.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:34.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.572][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:34.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:34.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:34.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:34.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:34.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:34.601][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 00:11:34.603][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 00:11:34.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:34.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:34.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:34.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:34.623][FUN] 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 00:11:34.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:34.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-03 00:11:34.630][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-03 00:11:34.633][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-03 00:11:34.637][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:34.640][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-03 00:11:34.645][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-03 00:11:34.648][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-03 00:11:34.651][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 00:11:34.654][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-03 00:11:34.657][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-03 00:11:34.659][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-03 00:11:34.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:34.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:34.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:34.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:34.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:34.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:34.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 00:11:34.699][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.702][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.707][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:34.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:34.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.721][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.724][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.728][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.731][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:34.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.740][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:34.743][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:34.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.748][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.750][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:34.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:34.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.760][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:34.762][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:34.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.767][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.770][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:34.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:34.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:34.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:34.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.788][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:34.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:34.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.801][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:34.803][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:34.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.808][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:34.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:34.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.821][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.824][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.829][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.832][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:34.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.842][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.845][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.849][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.853][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:34.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.863][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:34.865][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:34.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.870][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.872][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:34.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:34.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.883][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.886][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.891][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.894][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:34.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.904][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:34.907][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:34.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.911][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.914][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:34.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:34.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.924][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:34.927][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:34.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.931][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:34.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:34.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.945][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.948][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.952][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:34.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.974][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.977][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.982][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:34.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:34.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:34.995][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:34.997][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:34.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.001][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.014][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.016][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.021][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.024][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.034][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:35.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:35.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.041][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.044][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:35.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.053][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:35.055][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:35.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.060][ef$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.063][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-03 00:11:35.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:35.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.101][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:35.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:35.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.110][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:35.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:35.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.119][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-03 00:11:35.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-03 00:11:35.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.129][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:35.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.138][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:35.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:35.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.148][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-03 00:11:35.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-03 00:11:35.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:35.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:35.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:35.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:35.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-03 00:11:35.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-03 00:11:35.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:35.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:35.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:35.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:35.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:35.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-03 00:11:35.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.230][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:35.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:35.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:35.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:35.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.250][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:35.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-03 00:11:35.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.260][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:35.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:35.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.269][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:35.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:35.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.279][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:35.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-03 00:11:35.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.289][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:35.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.298][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:35.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:35.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.307][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:35.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-03 00:11:35.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.317][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.326][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.336][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:35.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:35.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.355][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:35.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.364][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-03 00:11:35.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-03 00:11:35.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:35.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:35.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:35.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:35.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-03 00:11:35.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-03 00:11:35.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.436][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:35.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:35.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:35.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:35.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.455][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:35.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-03 00:11:35.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:35.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:35.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:35.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:35.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:35.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-03 00:11:35.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.501][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.511][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.530][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:35.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:35.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.540][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:35.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.549][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:35.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-03 00:11:35.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.558][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:35.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:35.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.567][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:35.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:35.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.576][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:35.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-03 00:11:35.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.585][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:35.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:35.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.592][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:35.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:35.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.601][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-03 00:11:35.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-03 00:11:35.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.610][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:35.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.643][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-03 00:11:35.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-03 00:11:35.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-03 00:11:35.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-03 00:11:35.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.702][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:35.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:35.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.712][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:35.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:35.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.740][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:35.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-03 00:11:35.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-03 00:11:35.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-03 00:11:35.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:35.807][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-03 00:11:35.810][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.819][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.829][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.838][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:35.847][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 00:11:35.849][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:35.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:35.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:35.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:35.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:35.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-03 00:11:35.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:35.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:35.887][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-03 00:11:35.889][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-03 00:11:35.892][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-03 00:11:35.896][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:35.899][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:35.903][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:35.907][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:35.910][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:35.913][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 00:11:35.915][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:35.917][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:35.920][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:35.922][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 00:11:35.924][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 00:11:35.928][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.938][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.947][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.956][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.966][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.975][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:35.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:35.993][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:35.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:35.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:36.003][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 00:11:36.006][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 00:11:36.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:36.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:36.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:36.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:36.025][FUN] 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 00:11:36.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:36.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 00:11:36.032][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.041][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.051][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.060][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.070][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.088][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:36.097][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-03 00:11:36.098][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 00:11:36.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:36.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:36.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:36.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:36.117][FUN] 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 00:11:36.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:36.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_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 00:11:36.132][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-03 00:11:36.134][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-03 00:11:36.137][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-03 00:11:36.141][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:36.144][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:36.147][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-03 00:11:36.151][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-03 00:11:36.153][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-03 00:11:36.156][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 00:11:36.158][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-03 00:11:36.160][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-03 00:11:36.162][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-03 00:11:36.164][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-03 00:11:36.166][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-03 00:11:36.170][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.179][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.188][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.197][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.208][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.217][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.227][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:36.246][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-03 00:11:36.249][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-01-03 00:11:36.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:36.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:36.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:36.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:36.269][FUN] 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 00:11:36.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:36.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-03 00:11:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.287][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.297][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.306][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.315][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.324][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-03 00:11:36.334][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-03 00:11:36.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-03 00:11:36.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-03 00:11:36.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-03 00:11:36.342][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-03 00:11:36.345][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-03 00:11:36.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-03 00:11:36.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:36.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:36.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:36.364][FUN] 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 00:11:36.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:36.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-03 00:11:36.385][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-03 00:11:36.388][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-03 00:11:36.390][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-03 00:11:36.392][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-03 00:11:36.394][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-03 00:11:36.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-03 00:11:36.398][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-03 00:11:36.400][FUN] 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 00:11:36.402][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-03 00:11:36.404][FUN] Functions in observer 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 
 20.616   1.055  30.240

CHECK results for biodbHmdb on merida1

Summary

Command output

Installation output

Tests output

Example timings