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"	4746
palomino8	Windows Server 2022 Datacenter	x64	4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"	4494
merida1	macOS 12.7.5 Monterey	x86_64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4517
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4469
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.4.2 (2024-10-31) -- "Pile of Leaves"	4400
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: 2025-01-31 00:48:01 -0500 (Fri, 31 Jan 2025)

EndedAt: 2025-01-31 00:49:44 -0500 (Fri, 31 Jan 2025)

EllapsedTime: 102.8 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 [2025-01-31 00:49:06.717][biodb::testContext]
biodb.INFO [2025-01-31 00:49:06.725][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 00:49:06.728][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-01-31 00:49:06.730][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 00:49:06.732][biodb::testContext]
biodb.INFO [2025-01-31 00:49:06.736][biodb::testThat]
biodb.INFO [2025-01-31 00:49:06.739][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-01-31 00:49:06.741][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:06.743][biodb::testThat]
biodb.INFO [2025-01-31 00:49:06.977][biodb::testContext]
biodb.INFO [2025-01-31 00:49:06.980][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 00:49:06.982][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-31 00:49:06.984][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 00:49:06.987][biodb::testContext]
biodb.INFO [2025-01-31 00:49:07.004][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 00:49:07.009][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 00:49:07.022][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:07.025][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 00:49:07.027][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 00:49:07.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.036][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 00:49:07.094][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 00:49:07.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.103][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 00:49:07.105][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 00:49:07.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.114][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 00:49:07.116][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 00:49:07.119][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 00:49:07.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.125][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[2025-01-31 00:49:07.128][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 00:49:07.130][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 00:49:07.132][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 00:49:07.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.141][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 00:49:07.143][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 00:49:07.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.150][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[2025-01-31 00:49:07.153][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 00:49:07.155][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 00:49:07.158][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 00:49:07.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.167][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 00:49:07.169][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 00:49:07.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.178][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 00:49:07.181][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 00:49:07.183][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 00:49:07.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.192][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 00:49:07.195][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 00:49:07.197][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 00:49:07.200][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 00:49:07.202][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 00:49:07.205][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 00:49:07.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.214][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 00:49:07.217][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 00:49:07.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.226][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 00:49:07.228][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 00:49:07.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.235][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[2025-01-31 00:49:07.237][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 00:49:07.239][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 00:49:07.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.248][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 00:49:07.250][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 00:49:07.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.258][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[2025-01-31 00:49:07.260][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 00:49:07.263][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 00:49:07.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.272][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 00:49:07.275][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 00:49:07.297][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 00:49:07.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.305][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 00:49:07.308][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 00:49:07.311][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 00:49:07.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.326][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 00:49:07.416][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.459][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-31 00:49:07.461][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.464][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:07.466][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.469][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.471][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.473][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.476][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 00:49:07.478][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:07.481][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.483][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 00:49:07.486][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:07.488][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.490][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.493][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:07.493][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 00:49:07.493][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 00:49:07.493][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 00:49:07.493][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 00:49:07.495][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:07.498][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:07.500][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:07.502][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:07.505][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:07.515][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:07.518][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.521][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.523][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:07.525][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:07.528][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.531][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.534][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 00:49:07.538][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.540][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 00:49:07.543][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.546][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:07.549][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.551][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.554][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.558][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.561][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 00:49:07.563][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:07.566][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.568][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 00:49:07.570][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:07.573][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.575][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.577][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:07.577][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 00:49:07.577][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 00:49:07.577][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 00:49:07.577][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 00:49:07.580][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:07.582][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:07.584][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:07.586][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:07.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:07.590][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:07.592][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.594][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.597][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:07.599][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:07.601][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.603][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.606][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 00:49:07.611][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.613][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-31 00:49:07.615][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.618][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:07.620][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.622][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.624][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.627][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.629][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 00:49:07.631][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:07.633][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.636][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 00:49:07.638][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:07.640][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.642][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.645][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.647][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:07.650][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:07.651][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:07.654][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:07.656][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:07.658][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:07.661][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.663][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.666][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:07.668][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:07.670][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.673][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.676][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 00:49:07.680][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.683][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 00:49:07.685][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.687][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:07.690][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.692][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.694][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.697][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.699][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 00:49:07.701][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:07.703][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.705][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 00:49:07.708][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:07.710][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.712][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:07.714][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.716][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:07.718][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:07.720][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:07.723][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:07.725][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:07.727][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:07.729][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:07.732][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.734][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:07.736][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:07.738][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:07.740][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:07.748][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:07.750][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.844][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[2025-01-31 00:49:07.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.875][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[2025-01-31 00:49:07.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:07.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:07.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:07.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:07.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:07.939][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 00:49:07.948][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 00:49:07.951][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 00:49:07.954][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 00:49:07.957][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 00:49:07.961][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 00:49:07.964][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 00:49:07.968][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 00:49:07.971][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 00:49:07.974][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 00:49:07.977][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 00:49:07.981][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 00:49:07.984][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 00:49:07.987][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 00:49:07.990][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 00:49:07.994][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 00:49:07.998][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 00:49:08.001][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 00:49:08.005][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 00:49:08.008][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 00:49:08.013][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 00:49:08.017][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 00:49:08.020][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 00:49:08.023][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 00:49:08.027][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 00:49:08.030][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 00:49:08.033][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 00:49:08.036][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 00:49:08.039][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 00:49:08.042][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 00:49:08.046][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 00:49:08.049][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 00:49:08.052][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 00:49:08.055][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 00:49:08.059][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 00:49:08.062][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 00:49:08.065][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 00:49:08.068][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 00:49:08.072][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 00:49:08.075][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 00:49:08.079][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 00:49:08.082][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 00:49:08.086][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 00:49:08.090][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 00:49:08.094][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 00:49:08.097][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 00:49:08.101][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 00:49:08.127][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 00:49:08.131][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 00:49:08.134][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 00:49:08.138][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 00:49:08.141][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 00:49:08.145][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 00:49:08.149][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 00:49:08.152][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 00:49:08.155][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 00:49:08.159][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 00:49:08.163][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 00:49:08.167][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 00:49:08.170][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 00:49:08.174][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 00:49:08.178][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 00:49:08.181][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 00:49:08.184][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 00:49:08.188][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 00:49:08.191][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 00:49:08.194][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 00:49:08.198][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 00:49:08.201][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 00:49:08.205][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 00:49:08.208][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 00:49:08.212][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 00:49:08.215][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 00:49:08.219][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 00:49:08.226][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 00:49:08.229][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 00:49:08.232][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 00:49:08.236][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 00:49:08.239][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 00:49:08.243][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 00:49:08.247][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 00:49:08.250][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 00:49:08.253][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 00:49:08.269][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 00:49:08.272][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 00:49:08.279][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:08.281][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.285][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.525][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[2025-01-31 00:49:08.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:08.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:08.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.566][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[2025-01-31 00:49:08.570][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 00:49:08.595][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:08.599][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:08.600][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 00:49:08.601][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:08.603][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:08.604][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:08.606][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 00:49:08.608][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:08.610][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:08.612][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 00:49:08.614][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:08.617][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:08.619][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 00:49:08.621][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 00:49:08.623][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 00:49:08.627][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:08.629][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:08.629][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 00:49:08.629][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 00:49:08.632][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 00:49:08.634][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:08.636][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:08.638][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:08.641][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:08.643][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:08.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:08.647][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 00:49:08.647][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 00:49:08.650][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:08.651][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:08.654][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:08.656][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:08.668][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 00:49:08.672][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 00:49:08.675][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 00:49:08.679][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 00:49:08.683][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 00:49:08.728][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:08.731][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 00:49:08.738][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:08.747][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 00:49:08.755][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:08.757][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:08.760][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 00:49:08.762][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 00:49:08.765][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 00:49:08.765][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 00:49:08.774][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:08.776][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:08.778][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 00:49:08.780][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 00:49:08.783][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:08.846][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 00:49:08.881][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:08.883][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:08.887][private$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[2025-01-31 00:49:08.890][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:08.919][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 00:49:08.933][biodb::testThat]
biodb.INFO [2025-01-31 00:49:08.937][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-31 00:49:08.939][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:08.942][biodb::testThat]
biodb.TRACE[2025-01-31 00:49:08.949][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[2025-01-31 00:49:08.953][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 00:49:08.960][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 00:49:08.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:08.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:08.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:08.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:08.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:08.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:08.998][FUN] Functions in observer BiodbConfig: [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[2025-01-31 00:49:09.020][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:09.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:09.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.027][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:09.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:09.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.071][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:09.073][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:09.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.078][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.147][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:09.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:09.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.158][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.160][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.165][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.177][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.179][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.184][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.187][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.199][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.203][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.215][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.217][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.222][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.235][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.237][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.242][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.266][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:09.269][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:09.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.274][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.277][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:09.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:09.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.287][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.289][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.294][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.296][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.307][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.309][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.313][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.316][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.326][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:09.328][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:09.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.332][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.335][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:09.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:09.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.344][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:09.346][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:09.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.351][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:09.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:09.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.363][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.366][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.370][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.383][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:09.386][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:09.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.390][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:09.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:09.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.404][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:09.407][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:09.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.412][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.415][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:09.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:09.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.426][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:09.428][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:09.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.433][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.436][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:09.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:09.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.447][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:09.450][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:09.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.455][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.458][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:09.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:09.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.470][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:09.472][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:09.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.477][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.480][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:09.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:09.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:09.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:09.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:09.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:09.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:09.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:09.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.626][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.637][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.646][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:09.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.657][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.667][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.677][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:09.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:09.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:09.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.746][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.755][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.766][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:09.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.775][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.785][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.795][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:09.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.805][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:09.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:09.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.815][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:09.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:09.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.825][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:09.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:09.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.835][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:09.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:09.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.845][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:09.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:09.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.855][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:09.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:09.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.864][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:09.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:09.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.875][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:09.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:09.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:09.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:09.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:09.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:09.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:09.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:09.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:09.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:09.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:09.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.954][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.965][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.982][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:09.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:09.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:09.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:09.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:09.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:10.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:10.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:10.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:10.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:10.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:10.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:10.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:10.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:10.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:10.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.049][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.058][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.068][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.078][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.087][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.105][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:10.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:10.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:10.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:10.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.123][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:10.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:10.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.132][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:10.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:10.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:10.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:10.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:10.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:10.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.171][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:10.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:10.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.228][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:10.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:10.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.237][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:10.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:10.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:10.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:10.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:10.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:10.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:10.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:10.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.276][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.286][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.306][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:10.383][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 00:49:10.389][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 00:49:10.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 00:49:10.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 00:49:10.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 00:49:10.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.408][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 00:49:10.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 00:49:10.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.418][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 00:49:10.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 00:49:10.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.483][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.560][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.569][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.578][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:10.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.632][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.634][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.638][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:10.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:10.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.668][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.687][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.697][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.706][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.708][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.713][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.715][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:10.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.770][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.773][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.777][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:10.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.807][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.817][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.827][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.836][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.839][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.843][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.846][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:10.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.902][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.905][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.910][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:10.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.941][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.961][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.970][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.973][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.977][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:10.980][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:10.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:10.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:11.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.018][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:11.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:11.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.036][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:11.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:11.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.046][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:11.048][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:11.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.053][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:11.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:11.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.085][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:11.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:11.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.095][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:11.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:11.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.106][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:11.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:11.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.116][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:11.119][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:11.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.124][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.126][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:11.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:11.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.156][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:11.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:11.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.166][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:11.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:11.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:11.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:11.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.185][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:11.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:11.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.192][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.195][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:11.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:11.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.222][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.233][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.243][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.253][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.255][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.260][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.263][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.320][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.323][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.327][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:11.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.359][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.369][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.379][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.397][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.400][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.404][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.407][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:11.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.433][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.443][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.452][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.461][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.463][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.467][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.470][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:11.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.497][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.506][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.515][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.524][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.526][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.531][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.533][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:11.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.561][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:11.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:11.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:11.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:11.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.580][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:11.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:11.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.590][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:11.593][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:11.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.597][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.599][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:11.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:11.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:11.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:11.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:11.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:11.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.646][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:11.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:11.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.655][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:11.657][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:11.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.662][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.664][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:11.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:11.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.712][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.722][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.724][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.729][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:11.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.768][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.777][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.787][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.796][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.799][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.803][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.806][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.834][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:11.836][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:11.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.841][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.852][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.855][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:11.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.859][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.870][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.873][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:11.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.877][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:11.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:11.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.894][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:11.980][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:11.983][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:11.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:11.988][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.000][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.003][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.007][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.019][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:12.022][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:12.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.027][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.039][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:12.042][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:12.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.046][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.058][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:12.061][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:12.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.066][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.078][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:12.081][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:12.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.085][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.097][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:12.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:12.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.104][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:12.118][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:12.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.123][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.135][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:12.138][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:12.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.143][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:12.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:12.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.161][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.181][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:12.184][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:12.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.188][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.201][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:12.203][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:12.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.208][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.220][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:12.223][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:12.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.227][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.239][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:12.241][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:12.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.246][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 00:49:12.265][biodb::testThat]
biodb.INFO [2025-01-31 00:49:12.267][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-31 00:49:12.269][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:12.272][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:12.310][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-31 00:49:12.325][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 00:49:12.333][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:12.337][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 00:49:12.341][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 00:49:12.344][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 00:49:12.348][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-31 00:49:12.351][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 00:49:12.416][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 00:49:12.418][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 00:49:12.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:12.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:12.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:12.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:12.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:12.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:12.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 00:49:12.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:12.455][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:12.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.459][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:12.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:12.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.472][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:12.475][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:12.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.479][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.482][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:12.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:12.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.492][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.495][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.499][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.502][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.511][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.513][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.517][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.529][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.542][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.546][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.559][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.561][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.566][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.578][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:12.581][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:12.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.586][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.589][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:12.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:12.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.598][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:12.600][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:12.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.605][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.607][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:12.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:12.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.617][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.619][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.624][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.627][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.636][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:12.639][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:12.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.642][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.645][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:12.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:12.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.654][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:12.657][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:12.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.661][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.664][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:12.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:12.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.674][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:12.676][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:12.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.680][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:12.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:12.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.692][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:12.695][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:12.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.699][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.702][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:12.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:12.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:12.714][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:12.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.719][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:12.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:12.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.731][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:12.733][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:12.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.738][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:12.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:12.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.751][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:12.754][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:12.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.759][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.762][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:12.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:12.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.772][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:12.774][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:12.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.779][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.782][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:12.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:12.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.792][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:12.795][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:12.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.799][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.802][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:12.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:12.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:12.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:12.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:12.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:12.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:12.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:12.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.841][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.850][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.868][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:12.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.878][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.886][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.897][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:12.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:12.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:12.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.965][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.976][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.986][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:12.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:12.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:12.996][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:12.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:13.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.006][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:13.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:13.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.016][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:13.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:13.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.026][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:13.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:13.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.035][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:13.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:13.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.045][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:13.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:13.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.055][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:13.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:13.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.065][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:13.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:13.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.075][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:13.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:13.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:13.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:13.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:13.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:13.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.105][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:13.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:13.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:13.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:13.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:13.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:13.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:13.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:13.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:13.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:13.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.188][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:13.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:13.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.198][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:13.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:13.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:13.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:13.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:13.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:13.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:13.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:13.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.275][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:13.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:13.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.285][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:13.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:13.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.294][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:13.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:13.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.304][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:13.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:13.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.314][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:13.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:13.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.324][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:13.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:13.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.334][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:13.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:13.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.346][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:13.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:13.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.356][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:13.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:13.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.367][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:13.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.403][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:13.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:13.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.433][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.463][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:13.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:13.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.473][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:13.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:13.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:13.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:13.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.494][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:13.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:13.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:13.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:13.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:13.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:13.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:13.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:13.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:13.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:13.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:13.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:13.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:13.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:13.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:13.571][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 00:49:13.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-31 00:49:13.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-31 00:49:13.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-31 00:49:13.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-31 00:49:13.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-31 00:49:13.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-31 00:49:13.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 00:49:13.617][biodb::testThat]
biodb.INFO [2025-01-31 00:49:13.620][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-31 00:49:13.622][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:13.625][biodb::testThat]
biodb.TRACE[2025-01-31 00:49:13.631][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.634][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.639][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:13.642][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-01-31 00:49:13.713][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:13.748][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-01-31 00:49:13.751][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-31 00:49:13.753][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 00:49:13.755][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 00:49:13.759][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:13.763][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:13.766][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:13.770][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:13.772][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:13.775][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:13.778][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:13.780][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:13.783][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:13.785][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 00:49:13.787][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 00:49:13.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.818][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:13.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:13.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:13.828][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 00:49:13.830][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 00:49:13.832][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 00:49:13.861][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:13.863][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:13.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.868][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:13.870][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-01-31 00:49:13.909][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:13.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:13.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.919][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:13.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:13.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:13.928][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:13.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:13.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:13.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:13.943][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[2025-01-31 00:49:14.089][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 00:49:14.091][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-31 00:49:14.094][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-31 00:49:14.132][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.135][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.139][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:14.142][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.144][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:14.193][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:14.196][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:14.198][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:14.201][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:14.203][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 00:49:14.206][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 00:49:14.210][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:14.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:14.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.219][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:14.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:14.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.229][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:14.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:14.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.238][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:14.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:14.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:14.247][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 00:49:14.249][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 00:49:14.251][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 00:49:14.279][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.282][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.286][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:14.289][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-01-31 00:49:14.318][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.328][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.337][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:14.353][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-01-31 00:49:14.356][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-01-31 00:49:14.359][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-31 00:49:14.361][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-31 00:49:14.365][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.368][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.372][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:14.375][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.377][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:14.381][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:14.383][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:14.385][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:14.388][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:14.390][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 00:49:14.392][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 00:49:14.396][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.406][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.416][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.426][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:14.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:14.436][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 00:49:14.439][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 00:49:14.441][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-01-31 00:49:14.478][biodb::testThat]
biodb.INFO [2025-01-31 00:49:14.481][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-31 00:49:14.483][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:14.486][biodb::testThat]
biodb.TRACE[2025-01-31 00:49:14.513][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:14.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:14.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.522][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:14.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:14.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.540][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:14.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:14.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:14.574][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-31 00:49:14.577][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 00:49:14.579][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-31 00:49:14.584][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.587][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.591][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:14.595][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:14.598][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:14.601][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:14.604][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:14.606][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:14.609][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:14.611][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 00:49:14.614][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 00:49:14.618][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:14.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:14.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:14.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:14.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:14.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:14.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:14.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:14.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:14.660][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 00:49:14.662][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-31 00:49:14.700][biodb::testThat]
biodb.INFO [2025-01-31 00:49:14.702][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-31 00:49:14.704][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:14.706][biodb::testThat]
biodb.TRACE[2025-01-31 00:49:14.756][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 00:49:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 00:49:14.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.765][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 00:49:14.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 00:49:14.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.773][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 00:49:14.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 00:49:14.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.781][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 00:49:14.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 00:49:14.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.912][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 00:49:14.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 00:49:14.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.921][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-31 00:49:14.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-31 00:49:14.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.929][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-31 00:49:14.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-31 00:49:14.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:14.939][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-31 00:49:14.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-31 00:49:14.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:14.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 00:49:14.960][biodb::testThat]
biodb.INFO [2025-01-31 00:49:14.963][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-31 00:49:14.965][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:14.967][biodb::testThat]
biodb.INFO [2025-01-31 00:49:14.983][biodb::testThat]
biodb.INFO [2025-01-31 00:49:14.985][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-31 00:49:14.987][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:14.989][biodb::testThat]
biodb.INFO [2025-01-31 00:49:15.007][biodb::testThat]
biodb.INFO [2025-01-31 00:49:15.009][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-31 00:49:15.011][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:15.013][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:15.020][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-31 00:49:24.817][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-31 00:49:25.064][biodb::testThat]
biodb.INFO [2025-01-31 00:49:25.066][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-31 00:49:25.069][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:25.071][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:26.519][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-31 00:49:26.633][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:26.636][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:26.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.640][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.642][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:26.645][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:26.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.649][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.652][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:26.654][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:26.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.658][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 00:49:26.661][biodb::testThat]
biodb.INFO [2025-01-31 00:49:26.663][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-31 00:49:26.666][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:26.668][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:26.672][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-31 00:49:26.783][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 00:49:26.785][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:26.787][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 00:49:26.820][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-31 00:49:26.835][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-31 00:49:26.838][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-31 00:49:26.840][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 00:49:26.843][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:26.846][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 00:49:26.849][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 00:49:26.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:26.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:26.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:26.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:26.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:26.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:26.875][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.TRACE[2025-01-31 00:49:26.880][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:26.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:26.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.890][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:26.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:26.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:26.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:26.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:26.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:26.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:26.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:26.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:26.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:26.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:26.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:26.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:26.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:26.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:26.991][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-31 00:49:26.993][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-31 00:49:27.030][biodb::testThat]
biodb.INFO [2025-01-31 00:49:27.032][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-31 00:49:27.033][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:27.035][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:27.053][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-01-31 00:49:27.055][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-01-31 00:49:27.058][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 00:49:27.061][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:27.064][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 00:49:27.068][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-01-31 00:49:27.071][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-31 00:49:27.073][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-31 00:49:27.075][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 00:49:27.078][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:27.081][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 00:49:27.084][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 00:49:27.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:27.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:27.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:27.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:27.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:27.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.107][FUN] Functions in observer BiodbConfig: [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[2025-01-31 00:49:27.111][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:27.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:27.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.120][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:27.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:27.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:27.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:27.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:27.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:27.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:27.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:27.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:27.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:27.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:27.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:27.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:27.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:27.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:27.183][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-31 00:49:27.185][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-31 00:49:27.187][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-01-31 00:49:27.217][biodb::testThat]
biodb.INFO [2025-01-31 00:49:27.229][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-31 00:49:27.231][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:27.233][biodb::testThat]
biodb.INFO [2025-01-31 00:49:27.290][biodb::testThat]
biodb.INFO [2025-01-31 00:49:27.292][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-31 00:49:27.294][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:27.296][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:27.302][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:27.305][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:27.309][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:27.312][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:27.314][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:27.316][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:27.318][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:27.319][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:27.320][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-01-31 00:49:27.334][biodb::testThat]
biodb.INFO [2025-01-31 00:49:27.335][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-31 00:49:27.337][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:27.338][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:27.341][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:27.343][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:27.345][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:27.348][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:27.350][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:27.353][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:27.356][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:27.358][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:27.360][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-01-31 00:49:27.379][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:27.382][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:27.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.385][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.387][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:27.390][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:27.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.394][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:27.395][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:27.397][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:27.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:27.401][ef$get] fields variable is a list.
biodb.INFO [2025-01-31 00:49:27.403][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 00:49:27.406][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 00:49:27.425][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 00:49:27.427][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 00:49:27.429][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:27.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:27.433][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:27.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:27.437][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-31 00:49:27.446][biodb::testContext]
biodb.INFO [2025-01-31 00:49:27.449][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 00:49:27.451][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-01-31 00:49:27.454][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 00:49:27.456][biodb::testContext]
biodb.INFO [2025-01-31 00:49:27.465][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 00:49:27.476][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 00:49:27.484][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:27.487][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 00:49:27.489][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 00:49:27.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.497][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 00:49:27.500][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 00:49:27.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.508][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 00:49:27.511][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 00:49:27.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.519][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 00:49:27.521][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 00:49:27.523][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 00:49:27.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.530][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 00:49:27.533][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 00:49:27.536][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 00:49:27.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.544][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 00:49:27.546][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 00:49:27.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.554][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 00:49:27.556][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 00:49:27.559][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 00:49:27.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.567][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 00:49:27.570][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 00:49:27.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.578][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 00:49:27.581][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 00:49:27.583][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 00:49:27.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.592][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 00:49:27.594][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 00:49:27.596][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 00:49:27.597][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 00:49:27.599][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 00:49:27.602][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 00:49:27.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.610][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 00:49:27.612][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 00:49:27.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.621][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 00:49:27.623][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 00:49:27.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.632][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 00:49:27.635][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 00:49:27.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.643][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 00:49:27.645][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 00:49:27.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.652][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 00:49:27.654][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 00:49:27.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.662][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 00:49:27.665][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 00:49:27.685][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 00:49:27.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.694][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 00:49:27.696][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 00:49:27.699][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 00:49:27.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:27.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:27.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:27.706][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 00:49:27.710][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.713][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-31 00:49:27.715][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.717][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:27.719][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.721][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.723][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.726][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.728][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 00:49:27.730][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:27.740][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.743][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 00:49:27.745][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:27.747][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.750][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.752][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:27.752][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 00:49:27.752][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 00:49:27.752][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 00:49:27.752][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 00:49:27.754][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:27.757][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:27.759][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:27.761][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:27.763][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:27.765][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:27.768][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.770][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.773][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:27.775][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:27.778][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.780][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.783][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 00:49:27.787][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.790][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 00:49:27.792][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.794][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:27.797][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.799][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.801][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.804][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.806][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 00:49:27.808][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:27.810][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.812][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 00:49:27.815][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:27.817][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.819][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.821][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:27.821][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 00:49:27.821][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 00:49:27.821][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 00:49:27.821][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 00:49:27.824][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:27.826][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:27.828][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:27.830][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:27.832][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:27.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:27.837][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.839][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.842][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:27.844][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:27.846][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.849][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.851][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 00:49:27.856][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.858][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-31 00:49:27.860][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.863][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:27.865][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.867][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.869][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.872][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.874][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 00:49:27.876][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:27.879][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.881][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 00:49:27.883][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:27.886][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.888][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.890][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.893][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:27.895][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:27.897][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:27.899][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:27.901][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:27.903][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:27.906][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.908][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.910][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:27.912][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:27.915][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.917][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.920][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 00:49:27.924][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.927][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 00:49:27.929][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.932][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:27.934][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.937][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.939][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.941][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.944][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 00:49:27.946][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:27.948][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.951][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 00:49:27.953][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:27.956][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.958][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:27.960][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.962][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:27.965][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:27.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:27.969][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:27.971][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:27.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:27.975][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:27.977][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.980][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:27.982][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:27.984][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:27.994][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:27.998][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:28.000][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.011][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[2025-01-31 00:49:28.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.083][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[2025-01-31 00:49:28.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.104][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[2025-01-31 00:49:28.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.125][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[2025-01-31 00:49:28.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.170][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[2025-01-31 00:49:28.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.181][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[2025-01-31 00:49:28.184][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 00:49:28.188][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 00:49:28.192][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 00:49:28.196][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 00:49:28.200][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 00:49:28.203][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 00:49:28.207][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 00:49:28.212][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 00:49:28.215][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 00:49:28.219][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 00:49:28.223][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 00:49:28.227][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 00:49:28.230][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 00:49:28.234][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 00:49:28.238][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 00:49:28.241][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 00:49:28.244][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 00:49:28.253][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 00:49:28.255][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 00:49:28.258][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 00:49:28.261][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 00:49:28.264][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 00:49:28.267][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 00:49:28.270][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 00:49:28.274][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 00:49:28.277][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 00:49:28.280][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 00:49:28.284][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 00:49:28.286][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 00:49:28.289][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 00:49:28.292][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 00:49:28.295][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 00:49:28.299][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 00:49:28.303][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 00:49:28.306][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 00:49:28.310][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 00:49:28.314][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 00:49:28.317][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 00:49:28.320][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 00:49:28.323][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 00:49:28.327][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 00:49:28.330][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 00:49:28.333][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 00:49:28.337][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 00:49:28.341][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 00:49:28.344][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 00:49:28.347][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 00:49:28.350][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 00:49:28.353][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 00:49:28.356][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 00:49:28.359][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 00:49:28.362][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 00:49:28.366][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 00:49:28.369][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 00:49:28.371][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 00:49:28.373][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 00:49:28.377][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 00:49:28.380][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 00:49:28.384][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 00:49:28.387][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 00:49:28.389][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 00:49:28.392][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 00:49:28.395][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 00:49:28.398][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 00:49:28.401][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 00:49:28.405][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 00:49:28.408][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 00:49:28.411][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 00:49:28.414][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 00:49:28.417][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 00:49:28.420][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 00:49:28.423][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 00:49:28.427][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 00:49:28.430][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 00:49:28.433][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 00:49:28.437][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 00:49:28.440][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 00:49:28.443][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 00:49:28.446][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 00:49:28.450][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 00:49:28.453][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 00:49:28.456][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 00:49:28.460][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 00:49:28.463][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 00:49:28.466][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 00:49:28.468][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:28.471][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.475][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.524][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[2025-01-31 00:49:28.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:28.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:28.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:28.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:28.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:28.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:28.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:28.760][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 00:49:28.762][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:28.767][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:28.769][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 00:49:28.771][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:28.773][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:28.775][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:28.777][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 00:49:28.780][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:28.782][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:28.785][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 00:49:28.787][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:28.790][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:28.791][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 00:49:28.794][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 00:49:28.796][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 00:49:28.799][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:28.802][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:28.802][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 00:49:28.802][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 00:49:28.804][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 00:49:28.807][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:28.809][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:28.812][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:28.814][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:28.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:28.818][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:28.821][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 00:49:28.821][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 00:49:28.823][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:28.825][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:28.827][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:28.829][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:28.833][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 00:49:28.836][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 00:49:28.840][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 00:49:28.843][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 00:49:28.847][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 00:49:28.853][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:28.854][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 00:49:28.857][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:28.859][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 00:49:28.862][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:28.864][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:28.867][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 00:49:28.870][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 00:49:28.872][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 00:49:28.872][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 00:49:28.874][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:28.876][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:28.878][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 00:49:28.880][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 00:49:28.882][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:28.885][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 00:49:28.888][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:28.891][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:28.894][private$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[2025-01-31 00:49:28.897][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:28.899][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 00:49:28.902][biodb::testThat]
biodb.INFO [2025-01-31 00:49:28.904][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-01-31 00:49:28.906][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:28.908][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:28.917][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:28.920][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:28.923][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:28.926][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:28.929][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:28.932][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:28.934][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:28.936][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:28.939][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:28.945][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-31 00:49:28.957][biodb::testThat]
biodb.INFO [2025-01-31 00:49:28.960][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-01-31 00:49:28.962][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:28.964][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:28.968][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-31 00:49:28.971][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 00:49:28.974][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:28.978][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 00:49:28.983][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-31 00:49:28.986][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 00:49:29.060][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-31 00:49:29.063][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 00:49:29.065][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 00:49:29.076][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 00:49:29.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:29.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:29.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:29.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:29.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:29.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:29.101][FUN] Functions in observer BiodbConfig: [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[2025-01-31 00:49:29.107][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:29.110][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:29.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.114][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:29.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:29.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.126][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:29.129][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:29.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.133][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.136][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:29.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:29.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.145][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.147][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.151][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.154][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.164][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.167][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.171][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.174][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.184][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.191][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.204][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.207][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.212][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.225][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.227][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.232][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.235][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.244][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.247][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.251][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.254][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.263][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.266][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.270][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.273][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.282][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.285][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.289][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.291][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.301][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:29.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:29.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.308][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.311][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:29.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:29.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.319][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:29.328][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:29.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.333][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:29.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:29.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.342][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.345][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.349][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.362][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.365][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.369][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.380][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:29.382][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:29.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.385][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.388][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:29.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:29.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.397][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:29.400][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:29.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.404][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.407][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:29.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:29.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.417][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:29.419][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:29.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.423][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.425][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:29.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:29.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.434][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:29.437][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:29.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.441][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.444][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:29.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:29.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:29.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:29.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:29.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:29.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:29.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:29.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.510][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.520][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.529][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:29.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.539][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.546][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.555][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:29.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:29.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:29.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.628][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.637][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.646][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:29.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.655][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.665][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.674][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:29.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.684][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:29.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:29.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.693][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:29.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:29.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.704][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:29.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:29.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.742][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:29.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:29.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.752][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:29.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:29.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.761][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:29.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:29.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.771][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:29.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:29.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:29.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:29.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:29.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:29.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:29.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:29.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:29.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:29.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.819][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:29.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:29.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.828][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:29.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.865][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.882][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:29.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:29.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.920][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:29.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:29.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:29.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:29.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:29.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:29.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.948][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.958][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:29.967][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:29.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:29.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.005][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:30.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:30.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.015][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:30.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:30.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.024][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:30.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:30.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:30.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:30.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.042][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:30.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:30.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.050][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:30.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:30.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.059][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:30.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:30.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:30.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:30.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:30.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:30.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:30.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:30.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.096][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:30.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:30.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.106][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:30.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:30.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:30.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:30.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:30.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:30.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:30.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:30.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:30.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:30.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.159][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:30.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:30.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.192][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:30.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:30.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.212][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:30.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:30.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:30.279][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-31 00:49:30.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:30.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:30.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:30.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:30.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-31 00:49:30.322][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 00:49:30.324][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 00:49:30.327][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 00:49:30.329][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 00:49:30.331][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:30.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:30.335][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:30.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:30.338][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-31 00:49:30.349][biodb::testContext]
biodb.INFO [2025-01-31 00:49:30.373][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 00:49:30.376][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-01-31 00:49:30.378][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-31 00:49:30.380][biodb::testContext]
biodb.INFO [2025-01-31 00:49:30.391][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-31 00:49:30.395][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-31 00:49:30.405][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:30.407][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-31 00:49:30.410][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-31 00:49:30.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.418][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-31 00:49:30.421][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-31 00:49:30.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.430][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-31 00:49:30.432][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-31 00:49:30.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.439][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-31 00:49:30.441][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-31 00:49:30.442][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-31 00:49:30.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.450][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-31 00:49:30.462][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-31 00:49:30.464][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-31 00:49:30.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.472][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-31 00:49:30.474][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-31 00:49:30.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.483][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-31 00:49:30.485][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-31 00:49:30.487][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-31 00:49:30.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.495][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-31 00:49:30.498][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-31 00:49:30.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.506][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-31 00:49:30.508][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-31 00:49:30.510][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-31 00:49:30.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.519][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-31 00:49:30.521][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-31 00:49:30.524][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-31 00:49:30.526][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-31 00:49:30.529][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-31 00:49:30.531][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-31 00:49:30.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.540][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-31 00:49:30.543][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-31 00:49:30.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.552][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-31 00:49:30.576][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-31 00:49:30.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.584][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-31 00:49:30.587][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-31 00:49:30.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.595][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-31 00:49:30.598][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-31 00:49:30.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.606][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-31 00:49:30.609][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-31 00:49:30.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.619][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-31 00:49:30.621][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-31 00:49:30.638][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-31 00:49:30.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.647][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-31 00:49:30.649][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-31 00:49:30.652][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-31 00:49:30.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:30.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:30.661][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-31 00:49:30.669][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.672][self$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[2025-01-31 00:49:30.674][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.676][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:30.679][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.681][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.683][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.685][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.688][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 00:49:30.690][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:30.693][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.696][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-31 00:49:30.698][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:30.701][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.703][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.705][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:30.705][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 00:49:30.705][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 00:49:30.705][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 00:49:30.705][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 00:49:30.707][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:30.709][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:30.712][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:30.714][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:30.717][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:30.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:30.721][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.724][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.726][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:30.728][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:30.730][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.733][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.736][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-31 00:49:30.747][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.750][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 00:49:30.753][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.755][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:30.758][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.760][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.763][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.765][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.768][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 00:49:30.770][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:30.772][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.775][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-31 00:49:30.777][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:30.800][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.802][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.805][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:30.805][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-31 00:49:30.805][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-31 00:49:30.805][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-31 00:49:30.805][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-31 00:49:30.808][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:30.811][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:30.813][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:30.815][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:30.818][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:30.820][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:30.823][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.825][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.828][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:30.830][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:30.832][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.835][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.837][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-31 00:49:30.841][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.843][self$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[2025-01-31 00:49:30.845][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.848][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:30.850][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.852][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.855][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.857][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.860][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-31 00:49:30.862][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:30.864][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.867][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-31 00:49:30.870][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:30.873][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.875][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.879][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.882][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:30.884][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:30.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:30.889][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:30.891][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:30.893][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:30.895][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.897][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.900][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:30.902][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:30.904][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.907][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.909][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-31 00:49:30.913][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.916][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-31 00:49:30.917][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.919][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:30.922][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.924][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.926][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.928][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.931][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-31 00:49:30.933][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:30.935][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.938][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-31 00:49:30.940][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:30.943][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.945][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:30.947][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.950][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-31 00:49:30.951][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:30.953][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:30.954][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:30.975][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:30.977][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:30.979][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:30.982][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.984][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:30.986][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:30.988][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:30.991][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:30.993][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:30.995][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:30.997][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[2025-01-31 00:49:30.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.008][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[2025-01-31 00:49:31.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.047][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[2025-01-31 00:49:31.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.068][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[2025-01-31 00:49:31.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.098][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[2025-01-31 00:49:31.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.108][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[2025-01-31 00:49:31.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.135][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[2025-01-31 00:49:31.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.196][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-31 00:49:31.199][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-31 00:49:31.202][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-31 00:49:31.205][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-31 00:49:31.208][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-31 00:49:31.211][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 00:49:31.214][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-31 00:49:31.217][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-31 00:49:31.220][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-31 00:49:31.224][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 00:49:31.227][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 00:49:31.230][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-31 00:49:31.234][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-31 00:49:31.237][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-31 00:49:31.240][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-31 00:49:31.243][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 00:49:31.246][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-31 00:49:31.249][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-31 00:49:31.252][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-31 00:49:31.255][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-31 00:49:31.258][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-31 00:49:31.261][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-31 00:49:31.264][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-31 00:49:31.267][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-31 00:49:31.270][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-31 00:49:31.282][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-31 00:49:31.285][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-31 00:49:31.289][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-31 00:49:31.292][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-31 00:49:31.295][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-31 00:49:31.298][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-31 00:49:31.301][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-31 00:49:31.305][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-31 00:49:31.308][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-31 00:49:31.311][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-31 00:49:31.314][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-31 00:49:31.318][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-31 00:49:31.321][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-31 00:49:31.324][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-31 00:49:31.327][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-31 00:49:31.330][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-31 00:49:31.333][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-31 00:49:31.357][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-31 00:49:31.360][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-31 00:49:31.363][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-31 00:49:31.366][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-31 00:49:31.369][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-31 00:49:31.373][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-31 00:49:31.376][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-31 00:49:31.380][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-31 00:49:31.384][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-31 00:49:31.387][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-31 00:49:31.390][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-31 00:49:31.394][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-31 00:49:31.397][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-31 00:49:31.400][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-31 00:49:31.403][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-31 00:49:31.407][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-31 00:49:31.410][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-31 00:49:31.413][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-31 00:49:31.416][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-31 00:49:31.420][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-31 00:49:31.423][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-31 00:49:31.426][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-31 00:49:31.429][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-31 00:49:31.433][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-31 00:49:31.436][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-31 00:49:31.439][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-31 00:49:31.442][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-31 00:49:31.446][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-31 00:49:31.449][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-31 00:49:31.453][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-31 00:49:31.456][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-31 00:49:31.459][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-31 00:49:31.463][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-31 00:49:31.466][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-31 00:49:31.468][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-31 00:49:31.471][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-31 00:49:31.474][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-31 00:49:31.478][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-31 00:49:31.481][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-31 00:49:31.484][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-31 00:49:31.487][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-31 00:49:31.490][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-31 00:49:31.493][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-31 00:49:31.496][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-31 00:49:31.498][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.501][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.568][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[2025-01-31 00:49:31.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.600][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[2025-01-31 00:49:31.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-31 00:49:31.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:31.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:31.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:31.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:31.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:31.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:31.790][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-31 00:49:31.802][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:31.807][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:31.809][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-31 00:49:31.812][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:31.814][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-31 00:49:31.817][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:31.819][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-31 00:49:31.821][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:31.823][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-31 00:49:31.826][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-31 00:49:31.828][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-31 00:49:31.830][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:31.832][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-31 00:49:31.834][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-31 00:49:31.836][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-31 00:49:31.840][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-31 00:49:31.842][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-31 00:49:31.842][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-31 00:49:31.842][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-31 00:49:31.844][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-31 00:49:31.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:31.849][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:31.851][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-31 00:49:31.853][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-31 00:49:31.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-31 00:49:31.858][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-31 00:49:31.860][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 00:49:31.860][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-31 00:49:31.863][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:31.865][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:31.867][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-31 00:49:31.870][self$setPropertyValue]
biodb.DEBUG[2025-01-31 00:49:31.873][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-31 00:49:31.878][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-31 00:49:31.883][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-31 00:49:31.887][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-31 00:49:31.890][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-31 00:49:31.898][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:31.900][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-31 00:49:31.902][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:31.906][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 00:49:31.908][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:31.910][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:31.913][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-31 00:49:31.915][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-31 00:49:31.918][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-31 00:49:31.918][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-31 00:49:31.920][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-31 00:49:31.921][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-31 00:49:31.923][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-31 00:49:31.925][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-31 00:49:31.928][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-31 00:49:31.931][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 00:49:31.933][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:31.936][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:31.939][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-31 00:49:31.942][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-31 00:49:31.944][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-31 00:49:31.947][biodb::testThat]
biodb.INFO [2025-01-31 00:49:31.949][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-01-31 00:49:31.951][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-31 00:49:31.952][biodb::testThat]
biodb.DEBUG[2025-01-31 00:49:31.956][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 00:49:31.958][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-31 00:49:31.960][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-31 00:49:31.965][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:31.968][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:31.971][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:31.974][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:31.976][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:31.979][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:31.982][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:31.984][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:31.987][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:31.989][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 00:49:31.991][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-01-31 00:49:31.995][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-31 00:49:31.997][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 00:49:32.001][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:32.004][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 00:49:32.008][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-31 00:49:32.011][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 00:49:32.014][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-31 00:49:32.016][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 00:49:32.019][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 00:49:32.021][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 00:49:32.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:32.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:32.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:32.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:32.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:32.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:32.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 00:49:32.059][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:32.062][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:32.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.066][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:32.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:32.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.079][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.081][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.086][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.089][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.099][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.102][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.106][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.109][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.118][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.120][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.124][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.127][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.137][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.144][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.147][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.157][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.159][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.164][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.177][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.184][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.187][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.195][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.198][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.202][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.205][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.216][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.219][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.223][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.225][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.236][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.238][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.243][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.247][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.257][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:32.259][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:32.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.263][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.266][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:32.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:32.278][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:32.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.309][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:32.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:32.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.322][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.324][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.328][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.342][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.344][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.348][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.360][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:32.363][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:32.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.367][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:32.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:32.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.380][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:32.382][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:32.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.387][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.390][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:32.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:32.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.399][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:32.402][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:32.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.406][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.409][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:32.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:32.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.419][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:32.422][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:32.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.425][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.428][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:32.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:32.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:32.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:32.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:32.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:32.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:32.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:32.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.467][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.477][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.487][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:32.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.497][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.507][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.517][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:32.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:32.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:32.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.602][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.612][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.622][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:32.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.633][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.644][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.653][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:32.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.664][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:32.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:32.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.674][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:32.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:32.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.685][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:32.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:32.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.695][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:32.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:32.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.705][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:32.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:32.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.716][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:32.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:32.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.727][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:32.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:32.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.737][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:32.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:32.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:32.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:32.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:32.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:32.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:32.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:32.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:32.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:32.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.809][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:32.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.822][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.834][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:32.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:32.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.895][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:32.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:32.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:32.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:32.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.915][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:32.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:32.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.925][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.934][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:32.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.953][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.963][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.973][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:32.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.983][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:32.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:32.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:32.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:32.993][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:32.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:32.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.003][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:33.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:33.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.013][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:33.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.032][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.054][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:33.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.065][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:33.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:33.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.075][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:33.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:33.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.083][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:33.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:33.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:33.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:33.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:33.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:33.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.120][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:33.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:33.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.131][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:33.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:33.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.152][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:33.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:33.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:33.225][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-31 00:49:33.228][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:33.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:33.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.237][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:33.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:33.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.247][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:33.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:33.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.257][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:33.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:33.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:33.266][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 00:49:33.269][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 00:49:33.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:33.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:33.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:33.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:33.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:33.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:33.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:33.297][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-31 00:49:33.300][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-31 00:49:33.304][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:33.308][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-31 00:49:33.314][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-31 00:49:33.317][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-31 00:49:33.320][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-31 00:49:33.323][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-31 00:49:33.326][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-31 00:49:33.329][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-31 00:49:33.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:33.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:33.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:33.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:33.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:33.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:33.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 00:49:33.363][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.366][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.371][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.390][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:33.393][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:33.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.398][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.402][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:33.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:33.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.412][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.414][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.419][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.422][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.432][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.434][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.439][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.442][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.454][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.459][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.472][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.475][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.479][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.492][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:33.495][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:33.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.499][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.502][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:33.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:33.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.511][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:33.514][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:33.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.518][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.521][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:33.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:33.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.530][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.533][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.537][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.540][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.550][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.553][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.557][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.560][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.570][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:33.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:33.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.577][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.579][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:33.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:33.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.590][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:33.592][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:33.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.597][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:33.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:33.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.610][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.613][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.617][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:33.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.631][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:33.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:33.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.638][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:33.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:33.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.660][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:33.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:33.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.668][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:33.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:33.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.681][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:33.684][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:33.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.688][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.691][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:33.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:33.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.701][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:33.704][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:33.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.708][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:33.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:33.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.722][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:33.724][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:33.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.729][ef$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.732][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-31 00:49:33.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:33.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:33.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:33.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.773][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.782][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.791][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-31 00:49:33.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.800][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.810][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.821][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-31 00:49:33.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-31 00:49:33.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-31 00:49:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.891][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.902][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.921][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-31 00:49:33.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.932][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.942][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.953][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-31 00:49:33.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.963][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:33.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:33.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.972][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:33.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:33.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.981][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:33.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-31 00:49:33.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.990][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:33.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:33.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:33.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:33.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.008][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:34.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:34.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:34.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:34.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.037][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-31 00:49:34.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-31 00:49:34.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:34.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:34.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:34.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:34.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-31 00:49:34.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-31 00:49:34.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.088][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.107][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:34.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:34.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.115][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:34.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:34.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.123][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:34.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-31 00:49:34.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:34.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:34.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:34.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:34.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:34.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-31 00:49:34.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:34.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:34.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:34.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:34.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.181][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:34.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:34.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.190][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:34.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:34.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.198][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:34.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:34.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.207][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:34.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-31 00:49:34.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.215][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:34.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:34.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.222][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:34.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:34.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.230][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:34.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-31 00:49:34.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.239][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:34.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:34.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.247][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:34.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:34.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.255][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-31 00:49:34.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-31 00:49:34.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.264][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:34.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.273][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.282][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.299][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-31 00:49:34.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-31 00:49:34.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:34.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:34.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.317][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:34.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:34.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:34.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:34.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:34.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-31 00:49:34.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-31 00:49:34.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.353][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:34.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:34.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.361][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:34.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:34.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:34.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:34.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.378][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:34.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-31 00:49:34.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:34.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:34.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:34.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:34.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:34.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:34.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:34.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:34.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:34.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:34.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-31 00:49:34.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-31 00:49:34.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:34.451][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-31 00:49:34.453][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.462][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.469][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.476][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:34.485][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 00:49:34.488][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:34.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:34.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:34.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:34.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:34.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:34.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:34.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:34.576][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 00:49:34.579][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-31 00:49:34.581][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-31 00:49:34.584][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:34.588][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:34.591][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:34.594][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:34.596][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:34.598][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:34.601][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:34.603][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:34.604][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:34.606][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 00:49:34.607][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 00:49:34.610][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.618][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.626][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.634][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.642][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.651][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.660][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:34.667][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 00:49:34.669][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 00:49:34.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:34.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:34.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:34.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:34.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:34.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:34.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-31 00:49:34.702][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.711][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.720][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.728][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.736][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.745][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.754][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:34.764][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-31 00:49:34.766][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 00:49:34.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:34.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:34.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:34.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:34.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:34.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:34.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-31 00:49:34.802][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-31 00:49:34.804][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-31 00:49:34.806][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-31 00:49:34.810][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:34.813][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:34.816][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-31 00:49:34.820][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-31 00:49:34.822][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-31 00:49:34.824][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-31 00:49:34.826][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-31 00:49:34.829][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-31 00:49:34.831][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-31 00:49:34.833][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-31 00:49:34.836][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-31 00:49:34.840][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.849][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.856][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.865][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.874][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.882][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.890][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:34.899][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-31 00:49:34.901][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-01-31 00:49:34.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:34.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:34.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:34.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:34.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:34.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:34.932][FUN] Functions in observer BiodbConfig: [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[2025-01-31 00:49:34.935][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.944][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.953][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.961][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.970][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.978][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-31 00:49:34.985][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-31 00:49:34.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-31 00:49:34.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-31 00:49:34.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-31 00:49:34.994][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-31 00:49:34.997][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-31 00:49:34.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-31 00:49:35.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:35.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:35.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:35.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:35.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:35.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-31 00:49:35.036][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-31 00:49:35.039][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-31 00:49:35.042][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-31 00:49:35.044][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-31 00:49:35.046][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-31 00:49:35.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-31 00:49:35.050][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-31 00:49:35.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-31 00:49:35.054][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-31 00:49:35.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
 19.947   0.980  32.975

CHECK results for biodbHmdb on merida1

Summary

Command output

Installation output

Tests output

Example timings