Back to Mac ARM64 build report for BioC 3.17
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This page was generated on 2023-10-20 09:37:58 -0400 (Fri, 20 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson2macOS 12.6.1 Montereyarm644.3.1 (2023-06-16) -- "Beagle Scouts" 4347
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Package 197/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.6.1  (landing page)
Pierrick Roger
Snapshot Date: 2023-10-15 14:00:07 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_17
git_last_commit: 9247e81
git_last_commit_date: 2023-09-20 09:34:00 -0400 (Wed, 20 Sep 2023)
kjohnson2macOS 12.6.1 Monterey / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

CHECK results for biodbHmdb on kjohnson2


To the developers/maintainers of the biodbHmdb package:
- 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: 1.6.1
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_1.6.1.tar.gz
StartedAt: 2023-10-17 05:42:59 -0400 (Tue, 17 Oct 2023)
EndedAt: 2023-10-17 05:44:10 -0400 (Tue, 17 Oct 2023)
EllapsedTime: 70.6 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: biodbHmdb.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.6.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/biodbHmdb.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: aarch64-apple-darwin20 (64-bit)
* 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 12.6.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.6.1’
* 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 R 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 in ‘inst/doc’ ... 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-3.17-bioc-mac-arm64/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/4.3-arm64/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 arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c EntryMaker.cpp -o EntryMaker.o
EntryMaker.cpp:6:5: warning: field 'accession_tag' will be initialized after field 'closed' [-Wreorder-ctor]
    accession_tag("<accession>", "</accession>"),
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    closed(true)
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c TagDetector.cpp -o TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c test-runner.cpp -o test-runner.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20 (64-bit)

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 [2023-10-17 05:43:49.482][biodb::testContext]
biodb.INFO [2023-10-17 05:43:49.503][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-17 05:43:49.505][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2023-10-17 05:43:49.506][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-17 05:43:49.507][biodb::testContext]
biodb.INFO [2023-10-17 05:43:49.509][biodb::testThat]
biodb.INFO [2023-10-17 05:43:49.511][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2023-10-17 05:43:49.512][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:49.513][biodb::testThat]
biodb.INFO [2023-10-17 05:43:49.651][biodb::testContext]
biodb.INFO [2023-10-17 05:43:49.652][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-17 05:43:49.653][biodb::testContext] Test context - Generic tests
biodb.INFO [2023-10-17 05:43:49.654][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-17 05:43:49.655][biodb::testContext]
biodb.INFO [2023-10-17 05:43:49.666][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-17 05:43:49.669][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-17 05:43:49.679][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:43:49.681][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-17 05:43:49.682][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-17 05:43:49.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.687][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-17 05:43:49.711][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-17 05:43:49.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.716][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-17 05:43:49.718][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-17 05:43:49.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.723][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-17 05:43:49.724][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-17 05:43:49.725][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-17 05:43:49.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.730][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-17 05:43:49.732][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-17 05:43:49.734][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-17 05:43:49.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.739][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-17 05:43:49.740][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-17 05:43:49.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.748][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-17 05:43:49.749][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-17 05:43:49.751][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-17 05:43:49.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.756][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-17 05:43:49.757][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-17 05:43:49.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.762][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-17 05:43:49.763][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-17 05:43:49.765][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-17 05:43:49.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.769][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-17 05:43:49.771][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-17 05:43:49.772][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-17 05:43:49.774][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-17 05:43:49.776][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-17 05:43:49.778][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-17 05:43:49.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.782][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-17 05:43:49.784][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-17 05:43:49.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.791][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-17 05:43:49.792][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-17 05:43:49.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.797][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-17 05:43:49.799][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-17 05:43:49.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.803][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-17 05:43:49.805][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-17 05:43:49.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.809][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-17 05:43:49.811][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-17 05:43:49.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.816][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-17 05:43:49.818][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-17 05:43:49.839][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-17 05:43:49.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.853][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-17 05:43:49.855][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-17 05:43:49.856][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-17 05:43:49.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:49.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:49.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:49.864][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-17 05:43:49.905][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:49.923][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-17 05:43:49.924][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:49.926][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:49.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:49.928][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:49.930][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:49.932][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:49.934][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-17 05:43:49.935][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:49.936][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:49.937][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-17 05:43:49.940][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:49.942][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:49.944][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:49.946][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:43:49.946][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-17 05:43:49.946][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-17 05:43:49.946][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-17 05:43:49.946][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-17 05:43:49.947][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:49.949][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:49.950][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:49.951][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:49.953][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:49.955][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:49.956][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:49.958][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:49.959][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:49.961][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:49.965][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:49.966][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:49.967][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-17 05:43:49.971][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:49.972][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-17 05:43:49.977][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:49.978][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:49.979][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:49.981][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:49.982][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:49.985][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:49.986][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-17 05:43:49.988][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:49.992][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:49.994][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-17 05:43:49.995][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:49.997][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:49.998][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.000][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:43:50.000][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-17 05:43:50.000][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-17 05:43:50.000][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-17 05:43:50.000][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-17 05:43:50.003][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:50.005][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:50.008][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:50.009][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:50.010][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:50.014][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:50.015][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.016][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.018][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:50.019][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:50.021][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.023][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.025][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-17 05:43:50.028][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.030][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-17 05:43:50.031][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.034][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:50.036][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.037][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.039][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.040][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.043][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-17 05:43:50.045][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:50.047][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.049][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-17 05:43:50.050][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:50.052][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.054][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.056][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.059][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:50.061][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:50.062][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:50.065][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:50.066][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:50.068][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:50.069][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.071][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.072][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:50.073][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:50.074][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.075][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.076][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-17 05:43:50.078][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.080][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-17 05:43:50.085][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.086][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:50.087][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.089][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.090][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.091][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.092][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-17 05:43:50.095][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:50.096][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.097][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-17 05:43:50.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:50.099][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.101][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.102][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.104][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:50.106][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:50.107][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:50.111][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:50.112][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:50.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:50.115][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.116][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.118][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:50.121][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:50.123][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.124][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.131][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:43:50.133][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.170][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[2023-10-17 05:43:50.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.258][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[2023-10-17 05:43:50.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.266][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-17 05:43:50.272][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-17 05:43:50.274][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-17 05:43:50.275][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-17 05:43:50.277][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-17 05:43:50.279][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-17 05:43:50.281][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-17 05:43:50.283][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-17 05:43:50.285][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-17 05:43:50.287][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-17 05:43:50.289][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-17 05:43:50.290][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-17 05:43:50.292][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-17 05:43:50.294][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-17 05:43:50.295][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-17 05:43:50.297][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-17 05:43:50.300][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-17 05:43:50.302][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-17 05:43:50.305][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-17 05:43:50.307][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-17 05:43:50.310][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-17 05:43:50.313][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-17 05:43:50.318][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-17 05:43:50.320][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-17 05:43:50.323][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-17 05:43:50.325][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-17 05:43:50.327][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-17 05:43:50.329][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-17 05:43:50.331][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-17 05:43:50.333][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-17 05:43:50.335][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-17 05:43:50.339][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-17 05:43:50.341][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-17 05:43:50.344][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-17 05:43:50.346][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-17 05:43:50.349][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-17 05:43:50.351][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-17 05:43:50.353][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-17 05:43:50.355][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-17 05:43:50.358][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-17 05:43:50.361][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-17 05:43:50.365][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-17 05:43:50.367][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-17 05:43:50.371][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-17 05:43:50.373][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-17 05:43:50.375][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-17 05:43:50.377][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-17 05:43:50.381][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-17 05:43:50.383][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-17 05:43:50.386][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-17 05:43:50.388][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-17 05:43:50.391][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-17 05:43:50.393][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-17 05:43:50.396][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-17 05:43:50.397][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-17 05:43:50.398][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-17 05:43:50.400][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-17 05:43:50.402][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-17 05:43:50.407][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-17 05:43:50.409][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-17 05:43:50.411][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-17 05:43:50.413][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-17 05:43:50.416][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-17 05:43:50.418][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-17 05:43:50.420][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-17 05:43:50.423][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-17 05:43:50.426][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-17 05:43:50.427][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-17 05:43:50.432][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-17 05:43:50.434][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-17 05:43:50.436][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-17 05:43:50.438][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-17 05:43:50.442][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-17 05:43:50.444][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-17 05:43:50.446][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-17 05:43:50.448][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-17 05:43:50.452][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-17 05:43:50.454][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-17 05:43:50.456][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-17 05:43:50.458][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-17 05:43:50.462][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-17 05:43:50.463][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-17 05:43:50.467][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-17 05:43:50.488][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-17 05:43:50.491][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-17 05:43:50.496][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:43:50.498][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.501][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.518][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[2023-10-17 05:43:50.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.538][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[2023-10-17 05:43:50.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.550][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[2023-10-17 05:43:50.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.604][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[2023-10-17 05:43:50.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.618][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[2023-10-17 05:43:50.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.628][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[2023-10-17 05:43:50.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.669][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[2023-10-17 05:43:50.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:50.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:50.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.688][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[2023-10-17 05:43:50.690][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-10-17 05:43:50.704][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:43:50.707][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.709][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.710][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.711][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:50.713][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.715][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-10-17 05:43:50.718][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.720][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.721][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-17 05:43:50.723][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:50.725][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.726][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-10-17 05:43:50.728][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-10-17 05:43:50.729][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-10-17 05:43:50.731][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:50.733][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:43:50.733][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-10-17 05:43:50.733][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-10-17 05:43:50.734][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-17 05:43:50.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:50.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:50.738][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:50.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:50.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:50.742][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:50.743][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-10-17 05:43:50.743][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-10-17 05:43:50.744][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:50.746][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:50.747][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:50.748][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:50.754][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-10-17 05:43:50.756][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-17 05:43:50.758][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-17 05:43:50.760][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-17 05:43:50.763][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-17 05:43:50.808][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:43:50.809][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-10-17 05:43:50.815][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:43:50.821][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:43:50.826][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:50.828][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:50.831][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-10-17 05:43:50.832][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-10-17 05:43:50.833][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-10-17 05:43:50.833][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-10-17 05:43:50.835][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:50.836][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:50.837][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-10-17 05:43:50.839][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-10-17 05:43:50.840][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:43:50.861][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:43:50.863][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:50.864][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:50.866][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:43:50.868][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:50.870][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-10-17 05:43:50.882][biodb::testThat]
biodb.INFO [2023-10-17 05:43:50.883][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2023-10-17 05:43:50.884][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:50.886][biodb::testThat]
biodb.TRACE[2023-10-17 05:43:50.892][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2023-10-17 05:43:50.895][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-10-17 05:43:50.900][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-10-17 05:43:50.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:43:50.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:50.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:50.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:50.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:50.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:50.922][FUN] Functions in observer BiodbConfig: [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[2023-10-17 05:43:50.937][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:50.939][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:50.942][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:50.944][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:50.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:50.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:50.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:50.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:50.966][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:50.967][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:50.969][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:50.971][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.001][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.006][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.008][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.009][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.010][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.012][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.018][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.020][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.021][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.024][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.027][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.034][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.037][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.038][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.046][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.047][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.048][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.093][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.100][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.101][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.103][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.104][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.105][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.110][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.112][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.113][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.114][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.116][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.122][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.123][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.124][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.126][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.128][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.134][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.136][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.138][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.141][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.143][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.150][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:51.151][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:51.152][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.154][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.155][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:51.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:51.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.161][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:51.162][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:51.163][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.164][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:51.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:51.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.172][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.173][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.175][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.176][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.183][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.185][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.187][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.188][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.196][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.198][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.200][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.207][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:51.208][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:51.209][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.210][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.212][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:51.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:51.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.219][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:51.220][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:51.221][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.222][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.224][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:51.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:51.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.231][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:43:51.233][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:51.234][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.235][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.237][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:43:51.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:51.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.298][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.311][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.317][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:51.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.322][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.329][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.335][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:51.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:51.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.377][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.385][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.391][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:51.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.396][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.402][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.408][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:51.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.416][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:51.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:51.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.421][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:51.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:51.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.428][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:51.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:51.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.433][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:51.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:51.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.438][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:51.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:51.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.442][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:51.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:51.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.448][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:51.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:51.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.453][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:51.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:51.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.458][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:51.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:51.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:51.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:51.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:51.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:51.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:51.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:51.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.487][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.492][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.498][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.504][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:51.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:51.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.524][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.545][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.550][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.555][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.560][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.565][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.571][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.577][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.583][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:51.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:51.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.589][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:51.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:51.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.595][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:51.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:51.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.599][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:43:51.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.621][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:43:51.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:51.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.652][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:51.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:51.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.672][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.677][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.687][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:51.725][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2023-10-17 05:43:51.729][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-17 05:43:51.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-17 05:43:51.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.734][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-17 05:43:51.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-17 05:43:51.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.740][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-17 05:43:51.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-17 05:43:51.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.755][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-17 05:43:51.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-17 05:43:51.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.794][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.845][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.850][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.855][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:51.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.883][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.885][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.887][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.888][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:51.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:51.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.906][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.912][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.917][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.922][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.923][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.924][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.926][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.927][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:51.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.959][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.960][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.962][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.964][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:51.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.983][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:51.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:51.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:51.998][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.005][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.010][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.012][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.013][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.014][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.016][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.045][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.047][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.049][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.071][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.080][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.086][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.095][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.096][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.097][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.098][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.100][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.118][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:52.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:52.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:52.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:52.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:52.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:52.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.140][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:52.141][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:52.142][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.143][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:52.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:52.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.164][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:52.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:52.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.173][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:52.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:52.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.181][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:52.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:52.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.188][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:52.189][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:52.190][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.191][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.192][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:52.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:52.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.207][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:52.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:52.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.214][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:52.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:52.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.221][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:52.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:52.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.228][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:52.229][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:52.231][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.232][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:52.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:52.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.255][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.261][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.265][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.270][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.271][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.272][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.273][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.274][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.306][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.307][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.308][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.309][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.324][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.330][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.337][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.342][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.344][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.345][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.347][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.349][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.362][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.368][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.373][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.381][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.382][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.384][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.385][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.387][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.400][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.405][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.412][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.417][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.419][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.421][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.423][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.424][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.438][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:52.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:52.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.443][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:52.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:52.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.448][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:52.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:52.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.453][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:52.454][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:52.455][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.456][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.457][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:52.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:52.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:52.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:52.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:52.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:52.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:52.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:52.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:52.501][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:52.502][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.503][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:52.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:52.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.531][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.538][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.540][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.541][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.542][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.557][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.562][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.569][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.575][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.578][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.579][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.580][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.582][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.595][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:52.597][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:52.598][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.599][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.606][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.607][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.608][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.609][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.616][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.617][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.618][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.620][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.626][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.628][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.629][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.636][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:52.637][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:52.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.639][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.645][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.647][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.648][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.649][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.655][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.656][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:52.658][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.659][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.667][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.671][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:52.672][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.673][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.687][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:52.689][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:52.690][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.691][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.698][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:52.699][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:52.700][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.701][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.707][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:52.708][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:52.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.711][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.717][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.719][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:52.720][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.721][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.728][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.730][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.731][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.732][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.738][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.740][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:52.741][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.742][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.748][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:52.749][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:52.750][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.752][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.758][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.760][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.761][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.762][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.768][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:52.770][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:52.771][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.772][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.777][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:52.779][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:52.780][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.781][ef$get] fields variable is a list.
biodb.INFO [2023-10-17 05:43:52.795][biodb::testThat]
biodb.INFO [2023-10-17 05:43:52.796][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2023-10-17 05:43:52.798][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:52.803][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:52.823][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-10-17 05:43:52.833][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-10-17 05:43:52.838][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:52.840][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-10-17 05:43:52.843][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-10-17 05:43:52.844][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-17 05:43:52.847][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-10-17 05:43:52.848][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-10-17 05:43:52.883][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-10-17 05:43:52.885][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-10-17 05:43:52.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:43:52.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:52.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:52.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:52.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:52.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:52.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-17 05:43:52.903][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:52.905][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:52.906][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.907][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:52.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:52.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.914][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:52.915][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:52.916][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.918][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.919][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:52.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:52.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.925][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.927][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.928][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.929][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.931][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:52.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.936][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.937][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.939][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.940][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.942][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:52.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.947][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.949][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.951][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:52.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.957][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:52.958][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:52.960][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.961][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:52.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:52.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.968][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.969][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.970][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.972][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.974][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:52.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.980][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.981][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.983][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.984][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.985][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:52.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.991][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.992][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.993][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.994][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:52.996][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:52.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:52.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.001][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.002][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.003][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.004][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.006][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.011][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:53.012][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:53.013][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.014][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.016][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:53.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:53.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.021][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:53.022][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:53.023][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.024][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:53.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:53.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.033][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.035][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.036][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.037][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.039][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.043][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.044][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.045][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.046][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.056][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.058][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.059][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.061][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.063][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.071][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.073][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.075][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.077][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.079][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.087][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:53.089][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:53.091][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.093][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.095][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:53.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:53.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.111][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:43:53.113][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:53.115][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.116][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.118][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:43:53.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:53.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.139][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:53.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:53.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.145][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:53.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:53.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.152][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:53.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:53.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.159][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:53.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:53.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.165][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:53.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:53.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.170][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:53.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:53.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:53.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:53.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:53.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:53.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:53.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:53.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:53.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:53.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:53.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:53.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:53.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:53.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.208][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:53.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:53.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.213][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:53.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:53.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.218][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:53.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:53.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.223][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.228][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.235][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:53.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:53.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:53.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.247][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:53.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:53.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.252][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:53.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:53.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.257][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.262][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.266][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.271][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:53.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:53.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:53.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:53.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.282][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:53.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:53.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:53.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:53.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:53.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:53.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:53.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:53.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.327][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:53.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:53.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.331][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:53.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:53.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.336][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:53.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:53.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:53.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.365][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.376][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:53.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:53.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.381][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:53.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:53.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.386][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:53.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:53.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.391][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:53.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:53.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.397][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:53.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:53.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.403][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:53.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:53.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.408][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:53.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:53.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.415][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:53.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:53.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:53.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:53.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.426][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:43:53.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.431][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.447][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:43:53.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:53.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.459][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.471][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.481][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:53.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:53.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.488][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:53.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:53.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.498][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:53.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:53.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:53.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:53.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:53.547][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-10-17 05:43:53.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2023-10-17 05:43:53.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2023-10-17 05:43:53.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2023-10-17 05:43:53.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2023-10-17 05:43:53.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2023-10-17 05:43:53.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2023-10-17 05:43:53.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-17 05:43:53.579][biodb::testThat]
biodb.INFO [2023-10-17 05:43:53.580][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2023-10-17 05:43:53.581][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:53.583][biodb::testThat]
biodb.TRACE[2023-10-17 05:43:53.586][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.588][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.589][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.590][ef$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:53.592][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2023-10-17 05:43:53.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:53.645][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2023-10-17 05:43:53.647][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-10-17 05:43:53.648][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-10-17 05:43:53.649][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-10-17 05:43:53.652][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:53.657][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:53.659][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:43:53.662][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:53.663][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:43:53.666][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:43:53.668][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:43:53.669][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:43:53.671][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:43:53.672][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-10-17 05:43:53.673][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-10-17 05:43:53.676][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.681][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.686][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.692][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:53.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:53.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:53.697][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-10-17 05:43:53.698][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-10-17 05:43:53.699][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-10-17 05:43:53.715][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.716][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.717][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.718][ef$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:53.720][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2023-10-17 05:43:53.753][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.760][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.769][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:53.777][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[2023-10-17 05:43:53.854][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-10-17 05:43:53.857][private$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[2023-10-17 05:43:53.858][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2023-10-17 05:43:53.879][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:53.883][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:53.885][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:43:53.889][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:53.891][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:43:53.914][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:43:53.916][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:43:53.917][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:43:53.918][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:43:53.920][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-10-17 05:43:53.921][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-10-17 05:43:53.925][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.932][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.939][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:53.946][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:53.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:53.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:53.963][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-10-17 05:43:53.964][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-10-17 05:43:53.965][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2023-10-17 05:43:53.986][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:53.988][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:53.990][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:53.991][ef$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:53.992][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2023-10-17 05:43:54.014][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.020][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.030][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:54.043][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2023-10-17 05:43:54.045][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2023-10-17 05:43:54.046][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2023-10-17 05:43:54.048][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2023-10-17 05:43:54.050][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:54.052][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:54.054][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:43:54.056][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:54.058][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:43:54.060][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:43:54.064][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:43:54.066][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:43:54.067][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:43:54.069][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-10-17 05:43:54.070][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-10-17 05:43:54.073][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.078][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.085][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.091][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:54.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:54.096][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-10-17 05:43:54.097][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-10-17 05:43:54.098][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2023-10-17 05:43:54.121][biodb::testThat]
biodb.INFO [2023-10-17 05:43:54.122][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2023-10-17 05:43:54.124][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:54.126][biodb::testThat]
biodb.TRACE[2023-10-17 05:43:54.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:54.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:54.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:54.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:54.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:54.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:54.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:54.174][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2023-10-17 05:43:54.176][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-10-17 05:43:54.177][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2023-10-17 05:43:54.179][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:54.180][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:54.182][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:43:54.184][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:54.194][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:43:54.197][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:43:54.199][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:43:54.200][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:43:54.202][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:43:54.204][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-10-17 05:43:54.205][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-10-17 05:43:54.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:54.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:54.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:54.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:54.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:54.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:54.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.225][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:54.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:54.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:54.231][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-10-17 05:43:54.232][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2023-10-17 05:43:54.255][biodb::testThat]
biodb.INFO [2023-10-17 05:43:54.256][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2023-10-17 05:43:54.257][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:54.258][biodb::testThat]
biodb.TRACE[2023-10-17 05:43:54.284][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-17 05:43:54.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-17 05:43:54.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.290][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-17 05:43:54.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-17 05:43:54.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.297][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-17 05:43:54.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-17 05:43:54.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.302][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-17 05:43:54.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-17 05:43:54.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.351][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-17 05:43:54.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-17 05:43:54.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.356][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2023-10-17 05:43:54.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2023-10-17 05:43:54.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.362][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2023-10-17 05:43:54.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2023-10-17 05:43:54.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:54.376][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2023-10-17 05:43:54.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2023-10-17 05:43:54.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:54.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-17 05:43:54.387][biodb::testThat]
biodb.INFO [2023-10-17 05:43:54.388][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2023-10-17 05:43:54.389][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:54.390][biodb::testThat]
biodb.INFO [2023-10-17 05:43:54.402][biodb::testThat]
biodb.INFO [2023-10-17 05:43:54.404][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2023-10-17 05:43:54.405][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:54.407][biodb::testThat]
biodb.INFO [2023-10-17 05:43:54.416][biodb::testThat]
biodb.INFO [2023-10-17 05:43:54.417][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2023-10-17 05:43:54.418][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:54.419][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:54.423][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2023-10-17 05:43:55.845][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2023-10-17 05:43:55.912][biodb::testThat]
biodb.INFO [2023-10-17 05:43:55.913][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2023-10-17 05:43:55.914][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:55.916][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:56.617][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2023-10-17 05:43:56.665][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:56.666][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:56.667][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.669][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.670][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:56.671][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:56.672][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.673][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.675][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:56.676][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:56.677][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.679][ef$get] fields variable is a list.
biodb.INFO [2023-10-17 05:43:56.680][biodb::testThat]
biodb.INFO [2023-10-17 05:43:56.682][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2023-10-17 05:43:56.683][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:56.685][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:56.688][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2023-10-17 05:43:56.744][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-10-17 05:43:56.747][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:56.749][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-10-17 05:43:56.780][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2023-10-17 05:43:56.782][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-10-17 05:43:56.783][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-10-17 05:43:56.785][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-10-17 05:43:56.787][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:56.788][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-10-17 05:43:56.790][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-10-17 05:43:56.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:43:56.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:56.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:56.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:56.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:56.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:56.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-17 05:43:56.813][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:56.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:56.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.819][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:56.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:56.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:56.858][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-10-17 05:43:56.859][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2023-10-17 05:43:56.879][biodb::testThat]
biodb.INFO [2023-10-17 05:43:56.880][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2023-10-17 05:43:56.882][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:56.883][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:56.893][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2023-10-17 05:43:56.895][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2023-10-17 05:43:56.897][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-10-17 05:43:56.899][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:56.901][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-10-17 05:43:56.904][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2023-10-17 05:43:56.906][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2023-10-17 05:43:56.907][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2023-10-17 05:43:56.908][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-10-17 05:43:56.913][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:56.914][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-10-17 05:43:56.915][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-10-17 05:43:56.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:43:56.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:56.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:56.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:56.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:56.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:56.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-17 05:43:56.933][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:56.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:56.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.948][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:56.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:56.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:56.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:56.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:56.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:56.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:56.995][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2023-10-17 05:43:56.996][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2023-10-17 05:43:56.997][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2023-10-17 05:43:57.020][biodb::testThat]
biodb.INFO [2023-10-17 05:43:57.024][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2023-10-17 05:43:57.026][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:57.028][biodb::testThat]
biodb.INFO [2023-10-17 05:43:57.064][biodb::testThat]
biodb.INFO [2023-10-17 05:43:57.065][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2023-10-17 05:43:57.067][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:57.069][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:57.073][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:57.075][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:57.079][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:43:57.081][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:57.085][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:43:57.087][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:43:57.089][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:43:57.090][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:43:57.091][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2023-10-17 05:43:57.104][biodb::testThat]
biodb.INFO [2023-10-17 05:43:57.105][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2023-10-17 05:43:57.106][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:57.110][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:57.114][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:57.116][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:57.118][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:43:57.121][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:57.122][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:43:57.125][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:43:57.126][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:43:57.127][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:43:57.129][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2023-10-17 05:43:57.155][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:57.157][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:57.160][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:57.161][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:57.163][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:57.164][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:57.166][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:57.167][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:57.169][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:57.170][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:57.172][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:57.175][ef$get] fields variable is a list.
biodb.INFO [2023-10-17 05:43:57.176][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-17 05:43:57.180][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-10-17 05:43:57.193][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-10-17 05:43:57.196][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-17 05:43:57.197][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:57.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:57.199][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.203][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.204][FUN] Functions in observer BiodbConfig: [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 [2023-10-17 05:43:57.212][biodb::testContext]
biodb.INFO [2023-10-17 05:43:57.213][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-17 05:43:57.214][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2023-10-17 05:43:57.217][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-17 05:43:57.219][biodb::testContext]
biodb.INFO [2023-10-17 05:43:57.224][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-17 05:43:57.228][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-17 05:43:57.233][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:43:57.236][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-17 05:43:57.238][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-17 05:43:57.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.244][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-17 05:43:57.245][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-17 05:43:57.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.251][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-17 05:43:57.252][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-17 05:43:57.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.260][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-17 05:43:57.262][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-17 05:43:57.264][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-17 05:43:57.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.270][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-17 05:43:57.271][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-17 05:43:57.272][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-17 05:43:57.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.281][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-17 05:43:57.283][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-17 05:43:57.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.290][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-17 05:43:57.292][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-17 05:43:57.294][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-17 05:43:57.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.302][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-17 05:43:57.303][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-17 05:43:57.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.310][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-17 05:43:57.314][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-17 05:43:57.315][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-17 05:43:57.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.321][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-17 05:43:57.325][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-17 05:43:57.326][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-17 05:43:57.328][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-17 05:43:57.330][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-17 05:43:57.332][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-17 05:43:57.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.340][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.DEBUG[2023-10-17 05:43:57.343][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-17 05:43:57.348][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-17 05:43:57.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.354][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-17 05:43:57.355][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-17 05:43:57.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.361][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-17 05:43:57.365][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-17 05:43:57.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.372][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-17 05:43:57.373][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-17 05:43:57.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.380][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-17 05:43:57.396][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-17 05:43:57.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.403][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-17 05:43:57.404][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-17 05:43:57.440][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-17 05:43:57.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.444][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[2023-10-17 05:43:57.445][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-17 05:43:57.446][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-17 05:43:57.448][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-17 05:43:57.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.457][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-17 05:43:57.459][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.463][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2023-10-17 05:43:57.465][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.466][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:57.467][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.470][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.471][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.472][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.477][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-17 05:43:57.479][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:57.480][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.483][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-17 05:43:57.484][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:57.485][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.491][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.492][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:43:57.492][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-17 05:43:57.492][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-17 05:43:57.492][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-17 05:43:57.492][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-17 05:43:57.493][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:57.495][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:57.496][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:57.497][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:57.503][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:57.504][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:57.505][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.506][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.507][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:57.508][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:57.509][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.510][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.516][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-17 05:43:57.518][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.520][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-17 05:43:57.521][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.522][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:57.527][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.528][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.532][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.534][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-17 05:43:57.535][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:57.539][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.540][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-17 05:43:57.541][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:57.542][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.546][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.547][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:43:57.547][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-17 05:43:57.547][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-17 05:43:57.547][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-17 05:43:57.547][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-17 05:43:57.549][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:57.552][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:57.553][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:57.554][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:57.558][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:57.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:57.560][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.564][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.565][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:57.566][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:57.568][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.571][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.573][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-17 05:43:57.577][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.578][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2023-10-17 05:43:57.580][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.582][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:57.583][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.584][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.589][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.590][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.592][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-17 05:43:57.595][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:57.596][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.598][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-17 05:43:57.601][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:57.603][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.604][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.606][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.607][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:57.608][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:57.609][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:57.614][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:57.615][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:57.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:57.618][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.619][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.620][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:57.621][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:57.626][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.628][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.631][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-17 05:43:57.633][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.634][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-17 05:43:57.639][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.640][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:57.642][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.645][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.647][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.648][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.651][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-17 05:43:57.653][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:57.654][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.657][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-17 05:43:57.658][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:57.660][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.696][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:57.697][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.702][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:57.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:57.705][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:57.707][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:57.708][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:57.709][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:57.711][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:57.713][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.714][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:57.717][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:57.718][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:57.720][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:57.723][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:43:57.724][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.754][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[2023-10-17 05:43:57.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:57.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:57.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:57.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:57.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:57.850][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-17 05:43:57.852][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-17 05:43:57.853][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-17 05:43:57.857][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-17 05:43:57.859][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-17 05:43:57.863][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-17 05:43:57.865][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-17 05:43:57.867][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-17 05:43:57.868][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-17 05:43:57.870][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-17 05:43:57.876][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-17 05:43:57.879][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-17 05:43:57.881][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-17 05:43:57.884][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-17 05:43:57.885][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-17 05:43:57.889][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-17 05:43:57.894][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-17 05:43:57.896][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-17 05:43:57.899][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-17 05:43:57.915][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-17 05:43:57.917][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-17 05:43:57.921][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-17 05:43:57.922][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-17 05:43:57.927][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-17 05:43:57.931][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-17 05:43:57.934][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-17 05:43:57.938][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-17 05:43:57.941][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-17 05:43:57.942][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-17 05:43:57.944][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-17 05:43:57.946][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-17 05:43:57.948][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-17 05:43:57.953][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-17 05:43:57.955][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-17 05:43:57.958][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-17 05:43:57.960][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-17 05:43:57.962][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-17 05:43:57.964][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-17 05:43:57.968][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-17 05:43:57.970][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-17 05:43:57.973][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-17 05:43:57.976][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-17 05:43:57.978][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-17 05:43:57.980][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-17 05:43:57.983][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-17 05:43:57.984][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-17 05:43:57.987][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-17 05:43:57.989][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-17 05:43:57.992][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-17 05:43:57.995][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-17 05:43:57.998][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-17 05:43:58.000][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-17 05:43:58.003][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-17 05:43:58.005][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-17 05:43:58.007][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-17 05:43:58.010][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-17 05:43:58.011][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-17 05:43:58.014][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-17 05:43:58.016][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-17 05:43:58.020][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-17 05:43:58.021][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-17 05:43:58.024][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-17 05:43:58.025][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-17 05:43:58.029][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-17 05:43:58.031][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-17 05:43:58.034][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-17 05:43:58.036][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-17 05:43:58.040][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-17 05:43:58.041][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-17 05:43:58.045][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-17 05:43:58.047][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-17 05:43:58.048][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-17 05:43:58.052][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-17 05:43:58.056][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-17 05:43:58.058][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-17 05:43:58.060][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-17 05:43:58.063][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-17 05:43:58.065][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-17 05:43:58.068][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-17 05:43:58.070][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-17 05:43:58.074][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-17 05:43:58.076][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-17 05:43:58.078][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-17 05:43:58.080][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-17 05:43:58.083][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-17 05:43:58.084][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:43:58.085][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.090][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.115][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[2023-10-17 05:43:58.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.150][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[2023-10-17 05:43:58.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.164][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[2023-10-17 05:43:58.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:58.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:58.287][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-10-17 05:43:58.289][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:43:58.292][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:58.294][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-17 05:43:58.297][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:58.299][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:58.302][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:58.304][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-10-17 05:43:58.306][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:58.310][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:58.312][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-17 05:43:58.314][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:58.315][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:58.317][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-10-17 05:43:58.318][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-10-17 05:43:58.320][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-10-17 05:43:58.323][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:58.325][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:43:58.325][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-10-17 05:43:58.325][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-10-17 05:43:58.327][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-17 05:43:58.328][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:58.329][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:58.332][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:58.333][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:58.334][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:58.336][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:58.338][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-10-17 05:43:58.338][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-10-17 05:43:58.340][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:58.341][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:58.343][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:58.344][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:58.347][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-10-17 05:43:58.349][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-17 05:43:58.366][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-17 05:43:58.372][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-17 05:43:58.377][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-17 05:43:58.383][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:43:58.385][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-10-17 05:43:58.387][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:43:58.389][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:43:58.391][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:58.394][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:58.396][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-10-17 05:43:58.398][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-10-17 05:43:58.399][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-10-17 05:43:58.399][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-10-17 05:43:58.402][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:58.404][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:58.405][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-10-17 05:43:58.406][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-10-17 05:43:58.408][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:43:58.410][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:43:58.412][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:58.413][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:58.415][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:43:58.417][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:43:58.418][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-10-17 05:43:58.423][biodb::testThat]
biodb.INFO [2023-10-17 05:43:58.424][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2023-10-17 05:43:58.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:58.428][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:58.434][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:58.436][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:58.439][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:43:58.441][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:58.443][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:43:58.446][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:43:58.448][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:43:58.455][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:43:58.456][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:43:58.461][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-10-17 05:43:58.472][biodb::testThat]
biodb.INFO [2023-10-17 05:43:58.474][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2023-10-17 05:43:58.476][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:43:58.477][biodb::testThat]
biodb.DEBUG[2023-10-17 05:43:58.480][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-10-17 05:43:58.482][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-10-17 05:43:58.484][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:43:58.487][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-10-17 05:43:58.490][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-10-17 05:43:58.492][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-17 05:43:58.495][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-10-17 05:43:58.496][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-10-17 05:43:58.498][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-10-17 05:43:58.501][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-10-17 05:43:58.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:43:58.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:58.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:58.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:58.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:58.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:58.525][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.TRACE[2023-10-17 05:43:58.529][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:58.532][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:58.533][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.535][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:58.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:58.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.546][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:58.547][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:58.549][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.550][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.553][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:58.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:58.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.562][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.564][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.566][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.567][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.569][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.576][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.578][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.579][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.580][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.582][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.590][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.595][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.596][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.617][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.620][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.621][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.623][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.633][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:58.635][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:58.638][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.639][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.643][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:58.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:58.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.649][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:58.650][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:58.651][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.654][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.655][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:58.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:58.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.662][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.664][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.665][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.666][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.676][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.678][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.680][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.682][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.683][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.693][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:58.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:58.696][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.697][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:58.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:58.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.705][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:58.707][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:58.710][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.712][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:58.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:58.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.723][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:58.726][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:58.727][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.728][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.731][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:58.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:58.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.736][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:58.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:58.741][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.743][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:58.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:58.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.753][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:58.755][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:58.756][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.757][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.760][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:58.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:58.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.768][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:58.769][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:58.773][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.774][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.775][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:58.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:58.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.781][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:58.783][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:58.784][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.787][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:58.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:58.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.799][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:43:58.800][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:58.802][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.804][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.805][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:43:58.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:58.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:58.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:58.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:58.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:58.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:58.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:58.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.839][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.859][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.864][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:43:58.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.874][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.880][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.885][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:43:58.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:43:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:43:58.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.929][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.934][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.942][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:43:58.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.950][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.956][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.963][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:43:58.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.972][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:58.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:58.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.978][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:58.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:58.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.986][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:58.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:43:58.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.992][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:58.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:58.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:58.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:58.999][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:59.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:59.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.007][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:43:59.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:43:59.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.013][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:59.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:59.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.022][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:59.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:59.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:43:59.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:43:59.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.035][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:59.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:59.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:59.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:59.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:43:59.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:43:59.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.084][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.089][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:59.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:59.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.098][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:59.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:59.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.104][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:59.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:43:59.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:59.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:59.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:59.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:59.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:59.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:43:59.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.136][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:59.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:59.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.142][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:59.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:59.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:59.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:59.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.156][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:59.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:59.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.161][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:59.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:59.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.168][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:59.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:43:59.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.183][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:59.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:59.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.192][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:59.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:59.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.197][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:59.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:43:59.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.208][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:59.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:59.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:59.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:59.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.226][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:43:59.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:43:59.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.233][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:43:59.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.263][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:43:59.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:43:59.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.273][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:59.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:59.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:59.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:59.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.293][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:59.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:59.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:59.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:59.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:43:59.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:43:59.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.333][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:59.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:59.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.344][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:59.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:59.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.365][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:59.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:43:59.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:43:59.425][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-10-17 05:43:59.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:43:59.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:43:59.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:43:59.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:43:59.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2023-10-17 05:43:59.457][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-17 05:43:59.460][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-10-17 05:43:59.461][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-10-17 05:43:59.464][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-17 05:43:59.465][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:43:59.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:43:59.469][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.471][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2023-10-17 05:43:59.481][biodb::testContext]
biodb.INFO [2023-10-17 05:43:59.482][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-17 05:43:59.484][biodb::testContext] Test context - Test search of entries
biodb.INFO [2023-10-17 05:43:59.485][biodb::testContext] ********************************************************************************
biodb.INFO [2023-10-17 05:43:59.486][biodb::testContext]
biodb.INFO [2023-10-17 05:43:59.494][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.8.1.
biodb.DEBUG[2023-10-17 05:43:59.496][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2023-10-17 05:43:59.503][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:43:59.505][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2023-10-17 05:43:59.506][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2023-10-17 05:43:59.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.511][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2023-10-17 05:43:59.514][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2023-10-17 05:43:59.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.521][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2023-10-17 05:43:59.523][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2023-10-17 05:43:59.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.528][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2023-10-17 05:43:59.530][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2023-10-17 05:43:59.531][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2023-10-17 05:43:59.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.538][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2023-10-17 05:43:59.541][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2023-10-17 05:43:59.542][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2023-10-17 05:43:59.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.547][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2023-10-17 05:43:59.548][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2023-10-17 05:43:59.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.556][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2023-10-17 05:43:59.557][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2023-10-17 05:43:59.559][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2023-10-17 05:43:59.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.576][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2023-10-17 05:43:59.578][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2023-10-17 05:43:59.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.587][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2023-10-17 05:43:59.588][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2023-10-17 05:43:59.589][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2023-10-17 05:43:59.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.596][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2023-10-17 05:43:59.597][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2023-10-17 05:43:59.598][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2023-10-17 05:43:59.602][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2023-10-17 05:43:59.603][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2023-10-17 05:43:59.605][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2023-10-17 05:43:59.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.612][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2023-10-17 05:43:59.613][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2023-10-17 05:43:59.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.619][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2023-10-17 05:43:59.621][self$set] Set key entries.sep to "|".
biodb.DEBUG[2023-10-17 05:43:59.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.627][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2023-10-17 05:43:59.629][self$set] Set key offline to FALSE.
biodb.DEBUG[2023-10-17 05:43:59.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.633][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2023-10-17 05:43:59.635][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2023-10-17 05:43:59.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.639][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2023-10-17 05:43:59.641][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2023-10-17 05:43:59.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.645][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[2023-10-17 05:43:59.646][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2023-10-17 05:43:59.648][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2023-10-17 05:43:59.666][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2023-10-17 05:43:59.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.670][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2023-10-17 05:43:59.672][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2023-10-17 05:43:59.673][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2023-10-17 05:43:59.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.678][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2023-10-17 05:43:59.681][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.682][self$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[2023-10-17 05:43:59.684][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.685][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:59.687][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.689][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.691][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.692][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.694][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-17 05:43:59.695][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:59.697][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.699][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2023-10-17 05:43:59.700][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:59.701][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.702][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.704][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:43:59.704][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-17 05:43:59.704][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-17 05:43:59.704][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-17 05:43:59.704][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-17 05:43:59.705][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:59.707][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:59.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:59.709][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:59.710][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:59.711][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:59.713][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.714][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.715][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:59.716][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:59.718][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.719][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.721][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2023-10-17 05:43:59.724][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.725][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2023-10-17 05:43:59.726][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.728][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:59.729][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.731][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.733][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.735][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.736][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-17 05:43:59.738][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:59.744][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.745][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2023-10-17 05:43:59.746][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:59.748][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.749][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.750][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:43:59.750][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2023-10-17 05:43:59.750][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2023-10-17 05:43:59.750][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2023-10-17 05:43:59.750][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2023-10-17 05:43:59.751][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:59.753][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:59.754][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:59.755][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:59.756][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:59.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:59.758][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.760][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.761][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:59.763][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:59.764][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.766][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.768][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2023-10-17 05:43:59.770][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.771][self$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[2023-10-17 05:43:59.773][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.783][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:59.785][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.787][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.789][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.790][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.792][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2023-10-17 05:43:59.793][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:59.794][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.795][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2023-10-17 05:43:59.797][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:59.798][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.799][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.801][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.802][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:59.803][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:59.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:59.806][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:59.808][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:59.810][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:59.811][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.813][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.814][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:59.815][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:59.817][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.819][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.821][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2023-10-17 05:43:59.824][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.825][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2023-10-17 05:43:59.826][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.828][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:43:59.831][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.833][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.834][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.835][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.836][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2023-10-17 05:43:59.837][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:43:59.838][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.840][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2023-10-17 05:43:59.841][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:43:59.842][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.843][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2023-10-17 05:43:59.844][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.845][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2023-10-17 05:43:59.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:59.848][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:59.849][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:43:59.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:43:59.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:43:59.852][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:43:59.853][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.854][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:43:59.855][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:43:59.856][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2023-10-17 05:43:59.857][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:43:59.859][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:43:59.860][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.886][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[2023-10-17 05:43:59.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.928][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[2023-10-17 05:43:59.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:43:59.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:43:59.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:43:59.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:43:59.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:43:59.980][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2023-10-17 05:43:59.982][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2023-10-17 05:43:59.984][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2023-10-17 05:43:59.987][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2023-10-17 05:43:59.989][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2023-10-17 05:43:59.990][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-17 05:43:59.992][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2023-10-17 05:43:59.994][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2023-10-17 05:43:59.996][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2023-10-17 05:43:59.998][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-17 05:44:00.000][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-17 05:44:00.002][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2023-10-17 05:44:00.004][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2023-10-17 05:44:00.005][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2023-10-17 05:44:00.007][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2023-10-17 05:44:00.009][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-17 05:44:00.011][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2023-10-17 05:44:00.012][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2023-10-17 05:44:00.014][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2023-10-17 05:44:00.015][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2023-10-17 05:44:00.017][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2023-10-17 05:44:00.019][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2023-10-17 05:44:00.020][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2023-10-17 05:44:00.022][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2023-10-17 05:44:00.024][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2023-10-17 05:44:00.026][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2023-10-17 05:44:00.027][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2023-10-17 05:44:00.029][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2023-10-17 05:44:00.031][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2023-10-17 05:44:00.032][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2023-10-17 05:44:00.034][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2023-10-17 05:44:00.035][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2023-10-17 05:44:00.037][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2023-10-17 05:44:00.038][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2023-10-17 05:44:00.041][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2023-10-17 05:44:00.043][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2023-10-17 05:44:00.045][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2023-10-17 05:44:00.046][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2023-10-17 05:44:00.048][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2023-10-17 05:44:00.050][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2023-10-17 05:44:00.053][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2023-10-17 05:44:00.055][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2023-10-17 05:44:00.057][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2023-10-17 05:44:00.059][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2023-10-17 05:44:00.061][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2023-10-17 05:44:00.063][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2023-10-17 05:44:00.065][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2023-10-17 05:44:00.067][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2023-10-17 05:44:00.068][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2023-10-17 05:44:00.070][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2023-10-17 05:44:00.072][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2023-10-17 05:44:00.074][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2023-10-17 05:44:00.076][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2023-10-17 05:44:00.078][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2023-10-17 05:44:00.079][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2023-10-17 05:44:00.081][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2023-10-17 05:44:00.083][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2023-10-17 05:44:00.085][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2023-10-17 05:44:00.087][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2023-10-17 05:44:00.089][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2023-10-17 05:44:00.090][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2023-10-17 05:44:00.092][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2023-10-17 05:44:00.094][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2023-10-17 05:44:00.098][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2023-10-17 05:44:00.100][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2023-10-17 05:44:00.102][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2023-10-17 05:44:00.104][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2023-10-17 05:44:00.106][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2023-10-17 05:44:00.108][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2023-10-17 05:44:00.110][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2023-10-17 05:44:00.121][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2023-10-17 05:44:00.124][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2023-10-17 05:44:00.126][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2023-10-17 05:44:00.129][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2023-10-17 05:44:00.131][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2023-10-17 05:44:00.132][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2023-10-17 05:44:00.134][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2023-10-17 05:44:00.136][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2023-10-17 05:44:00.138][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2023-10-17 05:44:00.141][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2023-10-17 05:44:00.144][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2023-10-17 05:44:00.146][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2023-10-17 05:44:00.148][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2023-10-17 05:44:00.150][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2023-10-17 05:44:00.152][initialize] This is biodb version 1.8.1.
biodb.DEBUG[2023-10-17 05:44:00.154][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2023-10-17 05:44:00.155][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.157][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.159][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[2023-10-17 05:44:00.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.295][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[2023-10-17 05:44:00.297][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:00.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2023-10-17 05:44:00.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.312][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[2023-10-17 05:44:00.314][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2023-10-17 05:44:00.317][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:44:00.319][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2023-10-17 05:44:00.320][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2023-10-17 05:44:00.322][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2023-10-17 05:44:00.323][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2023-10-17 05:44:00.325][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2023-10-17 05:44:00.326][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2023-10-17 05:44:00.328][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2023-10-17 05:44:00.330][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2023-10-17 05:44:00.331][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2023-10-17 05:44:00.332][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2023-10-17 05:44:00.333][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2023-10-17 05:44:00.335][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2023-10-17 05:44:00.336][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2023-10-17 05:44:00.338][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2023-10-17 05:44:00.340][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2023-10-17 05:44:00.342][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2023-10-17 05:44:00.342][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2023-10-17 05:44:00.342][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2023-10-17 05:44:00.343][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2023-10-17 05:44:00.345][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:44:00.346][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:44:00.347][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2023-10-17 05:44:00.349][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2023-10-17 05:44:00.350][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2023-10-17 05:44:00.351][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2023-10-17 05:44:00.352][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-10-17 05:44:00.352][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2023-10-17 05:44:00.354][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:44:00.355][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:44:00.356][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2023-10-17 05:44:00.357][self$setPropertyValue]
biodb.DEBUG[2023-10-17 05:44:00.359][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2023-10-17 05:44:00.361][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2023-10-17 05:44:00.363][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2023-10-17 05:44:00.365][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2023-10-17 05:44:00.367][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2023-10-17 05:44:00.372][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:44:00.373][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2023-10-17 05:44:00.374][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:44:00.376][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:44:00.378][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:44:00.380][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:44:00.383][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2023-10-17 05:44:00.384][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2023-10-17 05:44:00.386][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2023-10-17 05:44:00.386][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2023-10-17 05:44:00.387][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2023-10-17 05:44:00.388][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2023-10-17 05:44:00.389][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2023-10-17 05:44:00.391][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2023-10-17 05:44:00.393][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2023-10-17 05:44:00.395][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:44:00.396][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:44:00.397][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:44:00.399][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2023-10-17 05:44:00.401][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2023-10-17 05:44:00.402][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2023-10-17 05:44:00.404][biodb::testThat]
biodb.INFO [2023-10-17 05:44:00.405][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2023-10-17 05:44:00.406][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2023-10-17 05:44:00.407][biodb::testThat]
biodb.DEBUG[2023-10-17 05:44:00.410][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-10-17 05:44:00.411][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2023-10-17 05:44:00.413][private$doSearchForEntries] fields VALUES = and
biodb.INFO [2023-10-17 05:44:00.416][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2023-10-17 05:44:00.417][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2023-10-17 05:44:00.419][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2023-10-17 05:44:00.420][private$doDownload] Downloading HMDB metabolite database at "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2023-10-17 05:44:00.422][cch$addFilesToCache] Moving files to cache [1]: "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2023-10-17 05:44:00.424][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-10-17 05:44:00.427][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2023-10-17 05:44:00.429][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-10-17 05:44:00.430][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2023-10-17 05:44:00.433][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker66d3207c20dcmarker".
biodb.TRACE[2023-10-17 05:44:00.435][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2023-10-17 05:44:00.437][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-10-17 05:44:00.439][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-10-17 05:44:00.441][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2023-10-17 05:44:00.442][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2023-10-17 05:44:00.445][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-10-17 05:44:00.449][private$doExtractDownload] Unzipping /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp...
biodb.DEBUG[2023-10-17 05:44:00.483][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2023-10-17 05:44:00.485][private$findXmlDatabaseFile] Found XML file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2023-10-17 05:44:00.486][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2023-10-17 05:44:00.488][private$doExtractDownload] Extract entries from XML file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2023-10-17 05:44:00.503][self$addFilesToCache] Moving files to cache [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2023-10-17 05:44:00.514][private$doAddFilesToCache] Destination files are [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-10-17 05:44:00.516][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-10-17 05:44:00.518][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2023-10-17 05:44:00.521][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker66d335515c2dmarker".
biodb.TRACE[2023-10-17 05:44:00.523][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2023-10-17 05:44:00.525][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-10-17 05:44:00.526][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:44:00.529][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:44:00.530][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:44:00.532][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:44:00.533][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:44:00.535][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:44:00.536][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:44:00.538][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-10-17 05:44:00.540][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2023-10-17 05:44:00.543][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2023-10-17 05:44:00.544][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-10-17 05:44:00.546][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:44:00.548][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-10-17 05:44:00.551][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2023-10-17 05:44:00.554][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-17 05:44:00.557][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2023-10-17 05:44:00.560][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-10-17 05:44:00.561][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-10-17 05:44:00.563][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-10-17 05:44:00.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:44:00.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:00.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:00.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:00.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:00.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:00.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-17 05:44:00.582][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:00.583][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:00.584][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.585][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:00.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:00.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.591][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:00.592][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:00.593][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.594][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.596][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:00.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:00.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.602][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.603][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.605][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.606][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.607][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.614][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.616][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.617][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.618][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.620][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.629][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.630][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.637][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.638][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.639][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.640][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.648][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:00.650][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:00.651][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.653][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.655][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:00.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:00.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.662][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:00.663][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:00.664][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.665][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.667][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:00.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:00.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.672][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.674][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.675][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.676][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.683][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.685][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.696][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.698][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.700][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.706][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:00.708][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:00.709][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.710][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:00.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:00.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.719][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:00.721][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:00.722][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.723][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.725][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:00.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:00.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:00.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:00.734][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.736][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:00.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:00.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.744][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:00.746][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:00.748][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.749][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:00.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:00.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.757][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:00.759][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:00.760][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.761][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:00.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:00.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.768][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:00.769][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:00.770][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.772][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.773][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:00.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:00.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.783][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:00.784][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:00.785][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.786][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.788][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:00.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:00.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.793][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:44:00.794][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:00.795][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.796][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.798][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:44:00.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:00.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:00.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:00.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:00.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:00.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:00.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:00.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.826][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.832][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.840][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:00.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.849][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.857][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.865][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:00.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:00.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:00.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.933][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.939][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.946][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:00.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.954][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.962][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:00.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.978][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:00.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:00.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.987][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:00.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:00.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:00.995][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:00.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:00.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:00.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.000][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.006][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.013][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.020][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:01.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:01.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:01.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:01.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.034][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:01.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:01.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:01.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:01.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:01.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:01.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.052][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:01.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:01.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.084][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.090][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.097][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.161][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.167][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.173][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.180][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.186][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.192][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:01.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:01.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.203][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:01.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:01.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:01.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:01.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.212][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:44:01.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.230][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:44:01.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.237][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.243][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.257][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.268][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:01.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:01.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.273][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:01.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:01.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.284][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:01.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:01.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:44:01.334][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2023-10-17 05:44:01.336][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.343][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.348][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.353][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:44:01.358][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-10-17 05:44:01.359][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-10-17 05:44:01.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:44:01.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:01.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:01.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:01.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:01.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:01.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:01.375][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2023-10-17 05:44:01.377][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2023-10-17 05:44:01.380][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:44:01.383][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2023-10-17 05:44:01.386][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2023-10-17 05:44:01.387][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2023-10-17 05:44:01.389][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-10-17 05:44:01.391][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2023-10-17 05:44:01.392][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2023-10-17 05:44:01.394][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2023-10-17 05:44:01.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:44:01.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:01.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:01.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:01.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:01.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:01.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-17 05:44:01.411][ef$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.413][ef$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.414][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.415][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.421][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.422][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.423][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.424][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.426][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.431][ef$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.432][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.433][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.434][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.436][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.442][ef$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.443][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.444][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.445][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.447][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.454][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.456][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.457][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.458][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.474][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.476][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.477][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.479][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.488][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.489][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.491][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.493][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.495][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.501][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.503][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.504][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.505][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.507][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.513][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.514][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.515][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.517][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.518][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.525][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.526][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.529][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.530][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.531][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.538][ef$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:01.540][ef$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:01.542][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.543][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:01.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:01.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.550][ef$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:01.551][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:01.553][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.554][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:01.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:01.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.561][ef$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.562][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.563][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.565][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.574][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.575][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.576][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.585][ef$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.587][ef$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.588][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.589][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.596][ef$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.597][ef$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.598][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.599][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.601][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.606][ef$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:01.607][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:01.608][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.609][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.611][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:01.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:01.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.615][ef$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:44:01.616][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:01.617][ef$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.618][ef$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.619][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2023-10-17 05:44:01.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:01.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:01.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:01.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.650][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.656][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.666][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2023-10-17 05:44:01.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.671][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.676][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.685][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2023-10-17 05:44:01.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2023-10-17 05:44:01.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2023-10-17 05:44:01.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.729][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.736][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.743][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2023-10-17 05:44:01.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.750][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.756][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.761][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2023-10-17 05:44:01.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.768][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:01.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:01.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.773][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:01.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:01.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.778][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:01.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2023-10-17 05:44:01.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.783][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.788][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.793][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:01.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:01.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.798][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:01.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:01.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.802][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:01.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:01.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2023-10-17 05:44:01.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2023-10-17 05:44:01.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:01.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:01.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:01.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:01.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.831][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2023-10-17 05:44:01.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2023-10-17 05:44:01.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.840][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.850][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.855][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.859][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2023-10-17 05:44:01.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2023-10-17 05:44:01.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.878][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.883][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.888][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.893][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.897][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.902][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2023-10-17 05:44:01.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.907][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.911][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.915][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2023-10-17 05:44:01.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:01.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:01.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.925][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:01.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:01.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.930][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2023-10-17 05:44:01.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2023-10-17 05:44:01.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.936][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:44:01.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.954][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2023-10-17 05:44:01.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2023-10-17 05:44:01.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:01.961][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:01.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:01.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:01.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:02.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:02.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.136][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:02.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:02.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:02.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:02.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2023-10-17 05:44:02.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2023-10-17 05:44:02.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.151][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:02.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:02.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.158][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:02.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:02.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:02.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:02.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.168][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:02.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2023-10-17 05:44:02.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:02.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:02.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:02.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:02.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:02.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:02.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:02.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:02.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:02.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:02.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2023-10-17 05:44:02.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2023-10-17 05:44:02.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:44:02.206][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2023-10-17 05:44:02.207][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.211][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.217][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.225][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:44:02.232][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-10-17 05:44:02.234][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:44:02.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:44:02.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:02.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:02.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:02.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:02.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:02.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:02.262][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-10-17 05:44:02.264][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2023-10-17 05:44:02.266][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.INFO [2023-10-17 05:44:02.268][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2023-10-17 05:44:02.271][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2023-10-17 05:44:02.272][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2023-10-17 05:44:02.273][private$doDownload] Downloading HMDB metabolite database at "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" ...
biodb.TRACE[2023-10-17 05:44:02.275][cch$addFilesToCache] Moving files to cache [1]: "/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.TRACE[2023-10-17 05:44:02.278][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-10-17 05:44:02.281][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2023-10-17 05:44:02.283][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-10-17 05:44:02.285][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2023-10-17 05:44:02.288][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker66d3707aa9b3marker".
biodb.TRACE[2023-10-17 05:44:02.289][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2023-10-17 05:44:02.291][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-10-17 05:44:02.293][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2023-10-17 05:44:02.295][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2023-10-17 05:44:02.309][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2023-10-17 05:44:02.311][self$getDownloadPath] Download path of hmdb.metabolites is "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2023-10-17 05:44:02.313][private$doExtractDownload] Unzipping /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp...
biodb.DEBUG[2023-10-17 05:44:02.317][private$findXmlDatabaseFile] Found files [1]: "hmdb_two_full_entries.xml" into /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2023-10-17 05:44:02.319][private$findXmlDatabaseFile] Found XML file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml in ZIP file.
biodb.DEBUG[2023-10-17 05:44:02.320][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2023-10-17 05:44:02.323][private$doExtractDownload] Extract entries from XML file "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/hmdb_two_full_entries.xml", into "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp".
biodb.TRACE[2023-10-17 05:44:02.336][self$addFilesToCache] Moving files to cache [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/HMDB0000002.xml".
biodb.TRACE[2023-10-17 05:44:02.338][private$doAddFilesToCache] Destination files are [2]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2023-10-17 05:44:02.340][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-10-17 05:44:02.341][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2023-10-17 05:44:02.344][self$addFilesToCache] Moving files to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/tmp/marker66d351b6076marker".
biodb.TRACE[2023-10-17 05:44:02.346][private$doAddFilesToCache] Destination files are [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2023-10-17 05:44:02.348][self$addFilesToCache] Done adding files.
biodb.DEBUG[2023-10-17 05:44:02.349][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:44:02.351][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:44:02.353][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:44:02.356][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:44:02.357][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:44:02.358][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:44:02.360][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:44:02.361][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-10-17 05:44:02.363][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-10-17 05:44:02.366][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.374][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.381][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.390][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.397][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.405][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.414][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:44:02.423][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-10-17 05:44:02.425][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-10-17 05:44:02.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:44:02.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:02.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:02.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:02.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:02.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:02.445][FUN] Functions in observer BiodbConfig: [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[2023-10-17 05:44:02.447][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.454][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.462][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.470][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.478][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.486][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.493][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:44:02.502][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-10-17 05:44:02.503][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-10-17 05:44:02.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:44:02.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:02.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:02.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:02.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:02.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:02.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2023-10-17 05:44:02.527][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2023-10-17 05:44:02.528][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-10-17 05:44:02.530][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2023-10-17 05:44:02.533][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:44:02.538][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:44:02.541][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2023-10-17 05:44:02.543][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2023-10-17 05:44:02.545][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2023-10-17 05:44:02.546][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2023-10-17 05:44:02.549][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2023-10-17 05:44:02.551][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2023-10-17 05:44:02.553][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2023-10-17 05:44:02.554][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2023-10-17 05:44:02.559][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2023-10-17 05:44:02.562][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.570][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.580][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.587][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.595][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.603][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.612][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:44:02.620][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2023-10-17 05:44:02.623][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2023-10-17 05:44:02.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:44:02.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:02.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:02.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:02.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:02.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:02.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2023-10-17 05:44:02.645][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.654][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.663][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.670][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.679][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.698][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2023-10-17 05:44:02.703][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2023-10-17 05:44:02.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2023-10-17 05:44:02.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2023-10-17 05:44:02.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2023-10-17 05:44:02.714][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2023-10-17 05:44:02.715][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2023-10-17 05:44:02.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2023-10-17 05:44:02.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:02.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:02.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:02.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:02.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:02.734][FUN] Functions in observer BiodbConfig: [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 [2023-10-17 05:44:02.742][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2023-10-17 05:44:02.745][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2023-10-17 05:44:02.746][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2023-10-17 05:44:02.747][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2023-10-17 05:44:02.751][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2023-10-17 05:44:02.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2023-10-17 05:44:02.753][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2023-10-17 05:44:02.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2023-10-17 05:44:02.756][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2023-10-17 05:44:02.757][FUN] Functions in observer 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 
 11.688   0.716  16.065

Example timings