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This page was generated on 2024-05-07 11:32:30 -0400 (Tue, 07 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson3macOS 13.6.5 Venturaarm644.4.0 (2024-04-24) -- "Puppy Cup" 4461
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Package 202/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.10.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-05-06 14:00:02 -0400 (Mon, 06 May 2024)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_19
git_last_commit: a7f41b2
git_last_commit_date: 2024-04-30 11:39:05 -0400 (Tue, 30 Apr 2024)
kjohnson3macOS 13.6.5 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

CHECK results for biodbHmdb on kjohnson3


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: 1.10.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbHmdb.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbHmdb_1.10.0.tar.gz
StartedAt: 2024-05-06 19:59:02 -0400 (Mon, 06 May 2024)
EndedAt: 2024-05-06 19:59:29 -0400 (Mon, 06 May 2024)
EllapsedTime: 26.3 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_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc-mac-arm64/meat/biodbHmdb.Rcheck’
* using R version 4.4.0 (2024-04-24)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.5
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.10.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... OK
* used C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.19-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/4.4-arm64/Resources/library’
* installing *source* package ‘biodbHmdb’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 15.0.0 (clang-1500.1.0.2.5)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c EntryMaker.cpp -o EntryMaker.o
EntryMaker.cpp:6:5: warning: field 'accession_tag' will be initialized after field 'closed' [-Wreorder-ctor]
    accession_tag("<accession>", "</accession>"),
    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
    closed(true)
1 warning generated.
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c FileEntryMaker.cpp -o FileEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c TagDetector.cpp -o TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c XmlSplitter.cpp -o XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c extractXmlEntries.cpp -o extractXmlEntries.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-100-TagDetector.cpp -o test-100-TagDetector.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
clang++ -arch arm64 -std=gnu++17 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/testthat/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c test-runner.cpp -o test-runner.o
clang++ -arch arm64 -std=gnu++17 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.0 (2024-04-24) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-05-06 19:59:17.270][biodb::testContext]
biodb.INFO [2024-05-06 19:59:17.272][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-06 19:59:17.272][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-05-06 19:59:17.272][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-06 19:59:17.272][biodb::testContext]
biodb.INFO [2024-05-06 19:59:17.273][biodb::testThat]
biodb.INFO [2024-05-06 19:59:17.273][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-05-06 19:59:17.274][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:17.274][biodb::testThat]
biodb.INFO [2024-05-06 19:59:17.318][biodb::testContext]
biodb.INFO [2024-05-06 19:59:17.318][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-06 19:59:17.318][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-05-06 19:59:17.319][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-06 19:59:17.319][biodb::testContext]
biodb.INFO [2024-05-06 19:59:17.323][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-06 19:59:17.323][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-05-06 19:59:17.326][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:17.327][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-06 19:59:17.327][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-06 19:59:17.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.328][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-06 19:59:17.334][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-06 19:59:17.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.335][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-06 19:59:17.335][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-06 19:59:17.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.336][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-06 19:59:17.336][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-06 19:59:17.337][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-06 19:59:17.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.337][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-06 19:59:17.338][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-06 19:59:17.341][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-06 19:59:17.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.342][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-06 19:59:17.342][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-06 19:59:17.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.343][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-06 19:59:17.343][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-06 19:59:17.344][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-06 19:59:17.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.345][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-06 19:59:17.345][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-06 19:59:17.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.346][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-06 19:59:17.346][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-06 19:59:17.346][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-06 19:59:17.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.347][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-06 19:59:17.348][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-06 19:59:17.348][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-06 19:59:17.348][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-06 19:59:17.348][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-06 19:59:17.349][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-06 19:59:17.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.350][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-06 19:59:17.350][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-06 19:59:17.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.351][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-06 19:59:17.351][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-06 19:59:17.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.352][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-06 19:59:17.352][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-06 19:59:17.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.353][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-06 19:59:17.353][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-06 19:59:17.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.354][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-06 19:59:17.354][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-06 19:59:17.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.355][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-06 19:59:17.356][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-06 19:59:17.361][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-06 19:59:17.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.362][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-06 19:59:17.363][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-06 19:59:17.363][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-06 19:59:17.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.365][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-06 19:59:17.375][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.380][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-06 19:59:17.380][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.380][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:17.381][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.381][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.381][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.381][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.382][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-06 19:59:17.382][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:17.382][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.382][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-06 19:59:17.382][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:17.383][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.383][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.383][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:17.383][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-06 19:59:17.383][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-06 19:59:17.383][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-06 19:59:17.383][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-06 19:59:17.383][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:17.384][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.384][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.384][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:17.384][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.385][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.385][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.385][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.385][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:17.385][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:17.386][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.386][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.386][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-06 19:59:17.387][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.387][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-06 19:59:17.387][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.387][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:17.388][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.388][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.388][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.388][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.388][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-06 19:59:17.389][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:17.389][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.389][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-06 19:59:17.389][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:17.390][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.390][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.390][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:17.390][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-06 19:59:17.390][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-06 19:59:17.390][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-06 19:59:17.390][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-06 19:59:17.390][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:17.391][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.391][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.391][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:17.391][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.391][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.392][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.392][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.392][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:17.392][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:17.393][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.393][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.395][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-06 19:59:17.396][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.396][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-06 19:59:17.396][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.397][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:17.397][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.397][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.397][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.398][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.398][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-06 19:59:17.398][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:17.398][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.399][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-06 19:59:17.399][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:17.399][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.399][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.399][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.400][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:17.400][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.400][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:17.401][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.401][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.401][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.401][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.401][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:17.402][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:17.402][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.402][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.402][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-06 19:59:17.403][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.403][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-06 19:59:17.403][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.404][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:17.404][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.404][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.404][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.405][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.405][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-06 19:59:17.405][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:17.405][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.406][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-06 19:59:17.406][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:17.406][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.406][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.406][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.407][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:17.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.407][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.407][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:17.408][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.408][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.408][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.408][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.408][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:17.409][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:17.409][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.409][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.411][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:17.411][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.429][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-06 19:59:17.431][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-06 19:59:17.431][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-06 19:59:17.432][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-06 19:59:17.432][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-06 19:59:17.432][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-06 19:59:17.433][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-06 19:59:17.433][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-06 19:59:17.434][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-06 19:59:17.434][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-06 19:59:17.434][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-06 19:59:17.435][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-06 19:59:17.435][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-06 19:59:17.435][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-06 19:59:17.436][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-06 19:59:17.436][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-06 19:59:17.436][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-06 19:59:17.437][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-06 19:59:17.437][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-06 19:59:17.437][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-06 19:59:17.438][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-06 19:59:17.438][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-06 19:59:17.438][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-06 19:59:17.439][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-06 19:59:17.439][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-06 19:59:17.439][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-06 19:59:17.442][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-06 19:59:17.442][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-06 19:59:17.442][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-06 19:59:17.443][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-06 19:59:17.443][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-06 19:59:17.443][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-06 19:59:17.444][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-06 19:59:17.444][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-06 19:59:17.444][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-06 19:59:17.445][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-06 19:59:17.445][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-06 19:59:17.445][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-06 19:59:17.446][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-06 19:59:17.446][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-06 19:59:17.446][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-06 19:59:17.447][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-06 19:59:17.447][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-06 19:59:17.448][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-06 19:59:17.448][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-06 19:59:17.448][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-06 19:59:17.449][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-06 19:59:17.449][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-06 19:59:17.449][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-06 19:59:17.450][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-06 19:59:17.450][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-06 19:59:17.450][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-06 19:59:17.451][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-06 19:59:17.451][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-06 19:59:17.451][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-06 19:59:17.452][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-06 19:59:17.452][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-06 19:59:17.452][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-06 19:59:17.453][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-06 19:59:17.453][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-06 19:59:17.453][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-06 19:59:17.454][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-06 19:59:17.454][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-06 19:59:17.454][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-06 19:59:17.455][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-06 19:59:17.455][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-06 19:59:17.455][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-06 19:59:17.456][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-06 19:59:17.456][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-06 19:59:17.456][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-06 19:59:17.457][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-06 19:59:17.457][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-06 19:59:17.457][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-06 19:59:17.458][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-06 19:59:17.458][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-06 19:59:17.458][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-06 19:59:17.459][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-06 19:59:17.459][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-06 19:59:17.459][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-06 19:59:17.460][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-06 19:59:17.460][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-06 19:59:17.460][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-06 19:59:17.461][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-06 19:59:17.462][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-06 19:59:17.463][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-06 19:59:17.464][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:17.464][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.465][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.502][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[2024-05-06 19:59:17.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:17.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:17.506][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-06 19:59:17.510][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:17.511][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.511][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.511][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.512][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:17.512][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.512][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-06 19:59:17.513][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.513][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.513][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-06 19:59:17.513][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-06 19:59:17.514][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-06 19:59:17.515][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:17.515][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:17.515][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-06 19:59:17.515][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-06 19:59:17.515][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-06 19:59:17.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.516][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:17.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:17.517][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:17.517][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:17.517][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-06 19:59:17.517][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-06 19:59:17.517][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:17.518][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:17.518][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:17.518][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:17.520][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-06 19:59:17.520][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-06 19:59:17.521][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-06 19:59:17.521][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-06 19:59:17.522][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-06 19:59:17.534][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:17.535][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-06 19:59:17.537][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:17.538][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:17.540][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:17.540][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:17.541][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-06 19:59:17.541][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-06 19:59:17.541][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-06 19:59:17.541][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-06 19:59:17.541][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:17.542][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:17.542][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-06 19:59:17.542][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-06 19:59:17.542][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:17.547][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:17.548][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:17.548][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:17.548][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:17.548][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:17.549][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-06 19:59:17.552][biodb::testThat]
biodb.INFO [2024-05-06 19:59:17.553][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-05-06 19:59:17.553][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:17.553][biodb::testThat]
biodb.TRACE[2024-05-06 19:59:17.555][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-05-06 19:59:17.556][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-06 19:59:17.557][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-06 19:59:17.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:17.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:17.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:17.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:17.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:17.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:17.569][FUN] Functions in observer BiodbConfig: [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[2024-05-06 19:59:17.574][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.574][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.575][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.581][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.581][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.582][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.590][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.591][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.591][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.592][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.592][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.593][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.594][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.594][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.594][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.596][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.596][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.598][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.598][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.598][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.600][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.600][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.601][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.602][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.602][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.603][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.603][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.604][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.604][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.605][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.605][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.606][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.606][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.607][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.607][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.608][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.609][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.609][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.609][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.610][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.611][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.611][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.615][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.615][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.616][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.617][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.617][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.618][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.619][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.620][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.621][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.621][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.622][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.622][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.623][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.624][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.624][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.624][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.625][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:17.626][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.626][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.626][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:17.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.641][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.642][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.643][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.644][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.645][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.646][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.656][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.657][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.658][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.659][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.660][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.661][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.662][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.663][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.664][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.665][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.666][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.667][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.668][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.669][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.670][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.677][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.678][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.679][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.683][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.686][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.687][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.688][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.689][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.690][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.691][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.694][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.695][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.696][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.697][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:17.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.699][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.701][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:17.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.707][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.710][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.712][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.713][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.714][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.716][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:17.723][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-06 19:59:17.723][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-06 19:59:17.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-06 19:59:17.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.725][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-06 19:59:17.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-06 19:59:17.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.726][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-06 19:59:17.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-06 19:59:17.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.727][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-06 19:59:17.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-06 19:59:17.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.740][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.749][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.750][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.751][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:17.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.758][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.758][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.759][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.763][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.764][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.765][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.766][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.766][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.767][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.767][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.774][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.774][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.775][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.775][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.779][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.780][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.784][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.785][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.785][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.785][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.786][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.793][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.793][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.797][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.798][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.799][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.800][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.801][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.801][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.801][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.805][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.806][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.807][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.808][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.809][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.809][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.813][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.814][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.815][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.816][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.816][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.817][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.817][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.821][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.822][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.823][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.824][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.827][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.827][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.828][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.828][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.832][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.833][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.834][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.835][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.836][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.836][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.836][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.843][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.843][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.844][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.848][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.849][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.850][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.851][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.851][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.851][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.852][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.855][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.856][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.857][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.858][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.858][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.859][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.859][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.862][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.864][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.865][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.866][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.866][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.866][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.872][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.874][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.875][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.876][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.876][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.883][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.883][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.884][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.891][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.892][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.892][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.896][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.897][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.898][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.905][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.905][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.907][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.907][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.911][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:17.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:17.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.912][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.925][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.926][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:17.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.926][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.941][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.948][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:17.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.953][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.955][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.955][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:17.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.956][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.957][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.962][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:17.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.963][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.967][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.968][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:17.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.968][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.970][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.970][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:17.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.971][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.972][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.972][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:17.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.973][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.974][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:17.975][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:17.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.975][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.977][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:17.978][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:17.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.978][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.980][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:17.980][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:17.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.981][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.982][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.982][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:17.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.983][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.985][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.986][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:17.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.986][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.988][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.988][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:17.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.989][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.990][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:17.990][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:17.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.991][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.992][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.993][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:17.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.994][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.995][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.996][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:17.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.996][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:17.998][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:17.998][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:17.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:17.998][ef$get] fields variable is a list.
biodb.INFO [2024-05-06 19:59:18.001][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.002][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-05-06 19:59:18.002][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:18.002][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:18.007][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-05-06 19:59:18.010][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-06 19:59:18.012][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.012][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-06 19:59:18.013][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-05-06 19:59:18.013][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-06 19:59:18.014][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-05-06 19:59:18.015][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-06 19:59:18.025][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-06 19:59:18.025][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-06 19:59:18.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:18.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:18.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:18.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:18.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:18.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:18.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-06 19:59:18.031][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.031][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.032][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.033][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.034][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.034][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.035][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.036][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.036][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.037][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.037][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.038][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.039][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.039][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.040][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.042][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.044][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.044][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.044][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.046][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.046][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.047][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.048][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.048][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.049][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.049][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.050][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.050][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.051][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.052][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.056][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.056][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.056][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.057][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.058][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:18.063][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:18.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.192][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.196][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:18.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:18.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.198][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:18.198][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:18.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.199][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:18.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:18.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.201][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.201][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.201][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.205][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.206][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.207][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.208][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.208][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.209][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.210][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.210][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.211][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.211][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.212][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:18.213][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:18.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.213][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.213][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:18.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:18.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.214][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:18.215][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:18.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.216][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.216][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:18.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:18.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.221][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.222][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.223][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:18.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.224][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.225][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.226][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:18.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:18.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:18.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.234][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.235][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:18.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.237][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.238][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.239][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:18.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.240][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:18.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:18.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:18.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:18.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.243][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:18.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:18.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.246][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.247][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.249][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:18.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:18.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.251][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:18.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:18.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.252][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:18.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:18.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:18.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:18.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:18.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:18.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:18.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:18.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.259][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.261][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.262][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.264][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:18.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:18.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.268][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.269][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.271][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.272][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.273][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:18.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.275][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.276][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.277][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:18.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:18.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:18.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:18.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:18.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:18.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.280][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:18.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.285][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:18.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:18.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.289][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.290][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.291][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.293][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.294][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:18.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.295][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:18.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:18.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.297][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:18.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:18.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:18.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:18.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.305][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-06 19:59:18.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-05-06 19:59:18.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-05-06 19:59:18.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-05-06 19:59:18.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-05-06 19:59:18.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-05-06 19:59:18.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-05-06 19:59:18.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-06 19:59:18.311][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.312][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-05-06 19:59:18.312][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:18.312][biodb::testThat]
biodb.TRACE[2024-05-06 19:59:18.313][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.314][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.314][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.314][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-05-06 19:59:18.324][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.325][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.328][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-05-06 19:59:18.328][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-05-06 19:59:18.329][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-06 19:59:18.329][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-06 19:59:18.332][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.332][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.333][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:18.333][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.333][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:18.334][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:18.334][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:18.334][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:18.335][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:18.335][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-06 19:59:18.335][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-06 19:59:18.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.339][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.340][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-06 19:59:18.340][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-06 19:59:18.340][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-05-06 19:59:18.344][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.345][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.345][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.345][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-05-06 19:59:18.349][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.350][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.351][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.353][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[2024-05-06 19:59:18.373][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-06 19:59:18.374][private$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[2024-05-06 19:59:18.374][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-05-06 19:59:18.379][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.379][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.380][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:18.380][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.380][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:18.385][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:18.385][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:18.385][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:18.385][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:18.386][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-06 19:59:18.386][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-06 19:59:18.387][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.388][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.389][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.390][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:18.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:18.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.391][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-06 19:59:18.391][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-06 19:59:18.392][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-05-06 19:59:18.396][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.396][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.397][ef$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.397][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-05-06 19:59:18.401][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.402][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.404][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.405][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-05-06 19:59:18.406][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-05-06 19:59:18.406][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-05-06 19:59:18.406][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-05-06 19:59:18.407][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.407][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.408][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:18.408][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.408][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:18.409][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:18.409][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:18.409][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:18.410][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:18.410][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-06 19:59:18.410][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-06 19:59:18.411][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.412][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.413][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.416][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:18.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.417][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-06 19:59:18.417][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-06 19:59:18.418][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-05-06 19:59:18.423][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.423][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-05-06 19:59:18.423][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:18.424][biodb::testThat]
biodb.TRACE[2024-05-06 19:59:18.427][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.434][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-05-06 19:59:18.435][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-06 19:59:18.435][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-05-06 19:59:18.435][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.436][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.436][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:18.437][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:18.437][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:18.437][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:18.438][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:18.438][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:18.438][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:18.438][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-06 19:59:18.439][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-06 19:59:18.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.442][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:18.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:18.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:18.443][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-06 19:59:18.444][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-05-06 19:59:18.448][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.449][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-05-06 19:59:18.449][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:18.449][biodb::testThat]
biodb.TRACE[2024-05-06 19:59:18.456][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-06 19:59:18.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-06 19:59:18.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.457][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-06 19:59:18.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-06 19:59:18.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.458][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-06 19:59:18.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-06 19:59:18.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.459][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-06 19:59:18.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-06 19:59:18.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.476][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-06 19:59:18.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-06 19:59:18.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.477][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-05-06 19:59:18.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-05-06 19:59:18.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.478][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-05-06 19:59:18.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-05-06 19:59:18.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:18.479][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-05-06 19:59:18.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-05-06 19:59:18.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:18.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-06 19:59:18.483][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.483][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-05-06 19:59:18.484][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:18.484][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.487][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.487][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-05-06 19:59:18.487][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:18.487][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.490][biodb::testThat]
biodb.INFO [2024-05-06 19:59:18.490][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-05-06 19:59:18.491][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:18.491][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:18.492][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-05-06 19:59:24.984][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-05-06 19:59:25.001][biodb::testThat]
biodb.INFO [2024-05-06 19:59:25.001][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-05-06 19:59:25.001][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:25.002][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:26.265][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-05-06 19:59:26.280][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.280][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.281][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.281][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.281][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.282][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.282][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.282][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.283][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.283][ef$get] fields variable is a list.
biodb.INFO [2024-05-06 19:59:26.284][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.284][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-05-06 19:59:26.284][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:26.284][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:26.285][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-05-06 19:59:26.306][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-06 19:59:26.307][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.307][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-06 19:59:26.312][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-05-06 19:59:26.312][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-06 19:59:26.313][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-06 19:59:26.313][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-06 19:59:26.314][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.314][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-06 19:59:26.315][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-06 19:59:26.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:26.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-06 19:59:26.319][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.320][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:26.331][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-05-06 19:59:26.331][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-05-06 19:59:26.337][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.338][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-05-06 19:59:26.338][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:26.338][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:26.341][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-05-06 19:59:26.341][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-05-06 19:59:26.342][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-06 19:59:26.342][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.343][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-06 19:59:26.343][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-05-06 19:59:26.344][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-05-06 19:59:26.344][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-05-06 19:59:26.345][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-06 19:59:26.345][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.346][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-06 19:59:26.346][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-06 19:59:26.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:26.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.350][FUN] Functions in observer BiodbConfig: [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[2024-05-06 19:59:26.350][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.351][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:26.359][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-05-06 19:59:26.360][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-05-06 19:59:26.360][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-05-06 19:59:26.379][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.379][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-05-06 19:59:26.379][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:26.380][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.388][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.388][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-05-06 19:59:26.388][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:26.389][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:26.389][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.390][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.390][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:26.391][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.391][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:26.391][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:26.392][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:26.392][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:26.392][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-05-06 19:59:26.395][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.396][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-05-06 19:59:26.396][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:26.396][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:26.397][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.397][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.398][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:26.398][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.398][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:26.399][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:26.399][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:26.399][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:26.399][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-05-06 19:59:26.402][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.403][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.403][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.403][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.404][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.404][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.404][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.405][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.405][ef$get] fields variable is a list.
biodb.INFO [2024-05-06 19:59:26.405][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-06 19:59:26.406][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-06 19:59:26.408][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-06 19:59:26.408][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-06 19:59:26.409][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.409][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.410][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-06 19:59:26.411][biodb::testContext]
biodb.INFO [2024-05-06 19:59:26.411][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-06 19:59:26.412][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-05-06 19:59:26.412][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-06 19:59:26.412][biodb::testContext]
biodb.INFO [2024-05-06 19:59:26.416][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-06 19:59:26.417][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-05-06 19:59:26.419][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:26.419][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-06 19:59:26.419][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.420][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-06 19:59:26.420][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.422][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-06 19:59:26.422][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.423][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-06 19:59:26.424][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-06 19:59:26.424][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-06 19:59:26.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.425][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-06 19:59:26.425][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-06 19:59:26.426][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.426][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-06 19:59:26.427][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-06 19:59:26.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.428][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-06 19:59:26.428][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-06 19:59:26.428][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-06 19:59:26.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.429][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-06 19:59:26.429][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.430][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-06 19:59:26.431][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-06 19:59:26.431][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.432][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-06 19:59:26.432][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-06 19:59:26.432][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-06 19:59:26.433][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-06 19:59:26.433][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-06 19:59:26.433][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-06 19:59:26.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.434][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-06 19:59:26.434][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-06 19:59:26.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.435][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-06 19:59:26.436][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-06 19:59:26.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.436][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-06 19:59:26.437][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-06 19:59:26.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.438][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-06 19:59:26.438][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-06 19:59:26.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.439][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-06 19:59:26.439][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-06 19:59:26.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.440][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-06 19:59:26.440][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-06 19:59:26.445][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-06 19:59:26.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.446][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-06 19:59:26.447][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-06 19:59:26.447][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-06 19:59:26.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.448][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-06 19:59:26.448][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.449][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-05-06 19:59:26.449][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.449][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.450][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.450][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.450][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.450][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.451][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-06 19:59:26.451][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.451][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.454][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-06 19:59:26.454][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.455][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.455][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.455][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:26.455][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-06 19:59:26.455][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-06 19:59:26.455][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-06 19:59:26.455][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-06 19:59:26.456][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:26.456][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.456][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.457][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.457][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.457][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.457][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.458][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.458][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.458][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.458][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.459][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-06 19:59:26.459][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.459][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-06 19:59:26.460][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.460][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.460][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.460][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.461][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.461][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.461][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-06 19:59:26.461][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.462][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.462][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-06 19:59:26.462][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.463][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.463][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.463][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:26.463][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-06 19:59:26.463][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-06 19:59:26.463][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-06 19:59:26.463][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-06 19:59:26.463][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:26.464][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.464][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.464][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.464][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.464][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.465][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.465][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.466][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.466][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.466][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.466][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.467][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-06 19:59:26.467][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.468][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-05-06 19:59:26.468][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.468][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.468][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.469][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.469][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.469][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.469][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-06 19:59:26.470][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.470][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.470][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-06 19:59:26.470][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.471][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.471][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.471][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.471][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:26.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.472][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.472][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.473][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.473][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.473][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.473][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.474][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.474][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.474][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.474][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-06 19:59:26.475][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.475][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-06 19:59:26.475][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.476][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.476][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.476][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.476][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.477][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.477][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-06 19:59:26.477][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.477][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.478][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-06 19:59:26.478][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.478][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.478][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.479][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.479][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:26.479][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.479][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.480][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.480][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.480][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.480][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.481][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.481][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.481][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.481][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.482][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.482][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:26.482][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.502][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[2024-05-06 19:59:26.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.503][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-06 19:59:26.504][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-06 19:59:26.504][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-06 19:59:26.505][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-06 19:59:26.505][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-06 19:59:26.505][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-06 19:59:26.506][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-06 19:59:26.506][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-06 19:59:26.506][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-06 19:59:26.507][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-06 19:59:26.507][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-06 19:59:26.507][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-06 19:59:26.508][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-06 19:59:26.508][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-06 19:59:26.508][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-06 19:59:26.509][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-06 19:59:26.509][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-06 19:59:26.510][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-06 19:59:26.510][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-06 19:59:26.510][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-06 19:59:26.511][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-06 19:59:26.511][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-06 19:59:26.511][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-06 19:59:26.514][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-06 19:59:26.514][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-06 19:59:26.515][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-06 19:59:26.515][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-06 19:59:26.515][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-06 19:59:26.516][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-06 19:59:26.516][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-06 19:59:26.516][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-06 19:59:26.517][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-06 19:59:26.517][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-06 19:59:26.518][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-06 19:59:26.518][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-06 19:59:26.518][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-06 19:59:26.519][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-06 19:59:26.519][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-06 19:59:26.519][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-06 19:59:26.520][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-06 19:59:26.520][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-06 19:59:26.520][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-06 19:59:26.521][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-06 19:59:26.521][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-06 19:59:26.522][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-06 19:59:26.522][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-06 19:59:26.522][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-06 19:59:26.523][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-06 19:59:26.523][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-06 19:59:26.523][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-06 19:59:26.524][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-06 19:59:26.524][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-06 19:59:26.524][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-06 19:59:26.525][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-06 19:59:26.525][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-06 19:59:26.525][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-06 19:59:26.526][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-06 19:59:26.526][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-06 19:59:26.527][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-06 19:59:26.527][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-06 19:59:26.528][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-06 19:59:26.528][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-06 19:59:26.529][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-06 19:59:26.529][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-06 19:59:26.529][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-06 19:59:26.530][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-06 19:59:26.530][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-06 19:59:26.530][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-06 19:59:26.531][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-06 19:59:26.531][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-06 19:59:26.531][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-06 19:59:26.532][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-06 19:59:26.532][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-06 19:59:26.533][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-06 19:59:26.533][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-06 19:59:26.533][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-06 19:59:26.534][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-06 19:59:26.534][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-06 19:59:26.534][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-06 19:59:26.535][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-06 19:59:26.535][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-06 19:59:26.536][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-06 19:59:26.536][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-06 19:59:26.536][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-06 19:59:26.537][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-06 19:59:26.537][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:26.537][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.538][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.538][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[2024-05-06 19:59:26.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.550][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[2024-05-06 19:59:26.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.553][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[2024-05-06 19:59:26.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.559][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[2024-05-06 19:59:26.560][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.568][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-06 19:59:26.568][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:26.569][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.569][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.569][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.570][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.570][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.570][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-06 19:59:26.570][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.571][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.571][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-06 19:59:26.571][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.571][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.572][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-06 19:59:26.574][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-06 19:59:26.575][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.575][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:26.575][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-06 19:59:26.575][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-06 19:59:26.575][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-06 19:59:26.575][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.576][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.576][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.576][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.577][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.577][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-06 19:59:26.577][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-06 19:59:26.577][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.577][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.578][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.578][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.578][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-06 19:59:26.579][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-06 19:59:26.579][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-06 19:59:26.580][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-06 19:59:26.580][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-06 19:59:26.581][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:26.581][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-06 19:59:26.582][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:26.582][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:26.582][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.583][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.583][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-06 19:59:26.583][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-06 19:59:26.583][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-06 19:59:26.583][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-06 19:59:26.584][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.584][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.584][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-06 19:59:26.584][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-06 19:59:26.585][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:26.585][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:26.585][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.586][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.586][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:26.586][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.587][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-06 19:59:26.587][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.587][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-05-06 19:59:26.588][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:26.588][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:26.589][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.589][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.590][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:26.590][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.591][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:26.591][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:26.591][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:26.591][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:26.592][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:26.593][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-05-06 19:59:26.595][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.595][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-05-06 19:59:26.595][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:26.595][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:26.596][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-05-06 19:59:26.596][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-06 19:59:26.597][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.597][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-06 19:59:26.598][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-05-06 19:59:26.599][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-06 19:59:26.600][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-06 19:59:26.600][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-06 19:59:26.601][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-06 19:59:26.601][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-06 19:59:26.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:26.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.605][FUN] Functions in observer BiodbConfig: [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[2024-05-06 19:59:26.606][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.606][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.607][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.608][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.609][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.612][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.612][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.613][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.614][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.614][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.614][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.616][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.616][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.616][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.617][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.618][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.619][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.620][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.620][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.621][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.622][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.623][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.623][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.623][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.624][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.625][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.625][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.625][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.627][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.627][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.627][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.628][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.629][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.629][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.629][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.630][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.631][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:26.631][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:26.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.632][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.632][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:26.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:26.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.633][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:26.633][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:26.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.634][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:26.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:26.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.635][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.636][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.636][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.637][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.638][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.638][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.640][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.640][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.640][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.644][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.645][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.645][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.646][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.647][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:26.647][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:26.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.647][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.648][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:26.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:26.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.649][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:26.649][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.649][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.650][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:26.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.654][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.655][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.656][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.657][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.658][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.659][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.667][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.668][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.669][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.670][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.671][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.674][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.676][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.677][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.678][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.679][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.681][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.682][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.683][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:26.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:26.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.684][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:26.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:26.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.686][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:26.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:26.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.687][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:26.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:26.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:26.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:26.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.689][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:26.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:26.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.693][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.694][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.695][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.700][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.702][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.703][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.706][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.707][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.708][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.709][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.710][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:26.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:26.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:26.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:26.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.712][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:26.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:26.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.713][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:26.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.717][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:26.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.720][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.722][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.724][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.725][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.727][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:26.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:26.736][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-05-06 19:59:26.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-05-06 19:59:26.742][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-06 19:59:26.742][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-06 19:59:26.742][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-06 19:59:26.743][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-06 19:59:26.743][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.743][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.744][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-05-06 19:59:26.745][biodb::testContext]
biodb.INFO [2024-05-06 19:59:26.746][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-06 19:59:26.746][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-05-06 19:59:26.746][biodb::testContext] ********************************************************************************
biodb.INFO [2024-05-06 19:59:26.746][biodb::testContext]
biodb.INFO [2024-05-06 19:59:26.748][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-05-06 19:59:26.748][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-05-06 19:59:26.750][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:26.750][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-05-06 19:59:26.751][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.752][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-05-06 19:59:26.752][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.753][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-05-06 19:59:26.753][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.754][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[2024-05-06 19:59:26.754][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-05-06 19:59:26.754][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-05-06 19:59:26.754][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-05-06 19:59:26.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.755][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-05-06 19:59:26.756][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-05-06 19:59:26.756][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.757][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-05-06 19:59:26.757][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-05-06 19:59:26.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.758][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-05-06 19:59:26.758][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-05-06 19:59:26.758][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-05-06 19:59:26.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.759][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-05-06 19:59:26.760][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.760][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-05-06 19:59:26.761][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-05-06 19:59:26.761][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-05-06 19:59:26.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.762][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-05-06 19:59:26.762][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-05-06 19:59:26.762][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-05-06 19:59:26.763][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-05-06 19:59:26.763][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-05-06 19:59:26.763][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-05-06 19:59:26.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.764][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-05-06 19:59:26.764][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-05-06 19:59:26.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.765][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-05-06 19:59:26.765][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-05-06 19:59:26.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.766][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-05-06 19:59:26.769][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-05-06 19:59:26.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.770][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-05-06 19:59:26.770][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-05-06 19:59:26.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.771][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-05-06 19:59:26.771][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-05-06 19:59:26.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.772][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-05-06 19:59:26.773][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-05-06 19:59:26.777][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-05-06 19:59:26.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.779][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-05-06 19:59:26.779][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-05-06 19:59:26.779][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-05-06 19:59:26.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.780][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-05-06 19:59:26.781][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.781][self$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[2024-05-06 19:59:26.781][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.782][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.782][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.782][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.783][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.783][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-06 19:59:26.783][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.783][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.784][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-05-06 19:59:26.784][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.784][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.784][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.785][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:26.785][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-06 19:59:26.785][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-06 19:59:26.785][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-06 19:59:26.785][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-06 19:59:26.785][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:26.785][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.785][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.786][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.786][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.787][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.787][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.787][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.787][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.788][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.788][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-05-06 19:59:26.788][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.789][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-05-06 19:59:26.789][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.789][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.789][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.790][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.790][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.790][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.790][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-06 19:59:26.791][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.791][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.791][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-05-06 19:59:26.791][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.792][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.792][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.792][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:26.792][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-05-06 19:59:26.792][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-05-06 19:59:26.792][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-05-06 19:59:26.792][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-05-06 19:59:26.792][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:26.793][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.793][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.793][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.793][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.794][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.794][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.794][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.794][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.795][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.795][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.795][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.795][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-05-06 19:59:26.796][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.796][self$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[2024-05-06 19:59:26.796][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.797][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.797][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.797][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.798][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.798][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.799][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-05-06 19:59:26.799][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.799][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.799][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-05-06 19:59:26.800][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.800][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.800][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.800][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.801][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:26.801][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.801][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.802][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.804][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.804][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.805][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.805][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.805][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.805][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.806][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.806][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.806][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-05-06 19:59:26.807][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.807][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-05-06 19:59:26.807][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.808][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.808][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.808][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.808][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.809][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.809][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-05-06 19:59:26.809][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.809][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.810][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-05-06 19:59:26.810][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.810][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.810][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.811][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.811][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-05-06 19:59:26.811][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.812][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.812][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.812][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.812][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.813][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.813][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.813][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.813][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.814][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.814][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:26.814][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.814][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[2024-05-06 19:59:26.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.817][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[2024-05-06 19:59:26.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.826][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[2024-05-06 19:59:26.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.833][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[2024-05-06 19:59:26.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.835][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-05-06 19:59:26.836][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-05-06 19:59:26.836][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-05-06 19:59:26.837][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-05-06 19:59:26.837][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-05-06 19:59:26.837][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-06 19:59:26.838][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-05-06 19:59:26.838][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-05-06 19:59:26.839][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-05-06 19:59:26.839][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-06 19:59:26.839][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-06 19:59:26.840][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-05-06 19:59:26.840][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-05-06 19:59:26.840][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-05-06 19:59:26.841][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-05-06 19:59:26.841][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-06 19:59:26.841][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-05-06 19:59:26.842][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-05-06 19:59:26.842][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-05-06 19:59:26.843][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-05-06 19:59:26.843][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-05-06 19:59:26.843][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-05-06 19:59:26.844][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-05-06 19:59:26.844][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-05-06 19:59:26.844][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-05-06 19:59:26.845][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-05-06 19:59:26.845][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-05-06 19:59:26.845][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-05-06 19:59:26.846][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-05-06 19:59:26.846][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-05-06 19:59:26.846][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-05-06 19:59:26.847][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-05-06 19:59:26.847][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-05-06 19:59:26.848][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-05-06 19:59:26.848][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-05-06 19:59:26.848][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-05-06 19:59:26.849][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-05-06 19:59:26.849][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-05-06 19:59:26.849][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-05-06 19:59:26.850][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-05-06 19:59:26.850][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-05-06 19:59:26.850][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-05-06 19:59:26.851][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-05-06 19:59:26.851][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-05-06 19:59:26.852][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-05-06 19:59:26.852][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-05-06 19:59:26.852][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-05-06 19:59:26.853][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-05-06 19:59:26.853][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-05-06 19:59:26.854][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-05-06 19:59:26.854][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-05-06 19:59:26.855][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-05-06 19:59:26.855][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-05-06 19:59:26.855][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-05-06 19:59:26.856][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-05-06 19:59:26.856][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-05-06 19:59:26.857][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-05-06 19:59:26.857][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-05-06 19:59:26.857][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-05-06 19:59:26.858][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-05-06 19:59:26.858][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-05-06 19:59:26.858][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-05-06 19:59:26.859][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-05-06 19:59:26.859][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-05-06 19:59:26.860][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-05-06 19:59:26.862][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-05-06 19:59:26.863][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-05-06 19:59:26.863][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-05-06 19:59:26.864][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-05-06 19:59:26.864][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-05-06 19:59:26.864][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-05-06 19:59:26.865][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-05-06 19:59:26.865][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-05-06 19:59:26.865][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-05-06 19:59:26.866][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-05-06 19:59:26.866][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-05-06 19:59:26.867][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-05-06 19:59:26.867][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-05-06 19:59:26.867][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-05-06 19:59:26.868][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-05-06 19:59:26.868][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-05-06 19:59:26.868][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-05-06 19:59:26.869][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-05-06 19:59:26.869][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-05-06 19:59:26.870][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-05-06 19:59:26.870][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-05-06 19:59:26.870][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.871][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.873][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[2024-05-06 19:59:26.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.879][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[2024-05-06 19:59:26.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.892][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[2024-05-06 19:59:26.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-05-06 19:59:26.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:26.901][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-05-06 19:59:26.901][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:26.902][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.902][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.902][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.902][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-05-06 19:59:26.903][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.903][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-05-06 19:59:26.903][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.903][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.904][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-05-06 19:59:26.904][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-05-06 19:59:26.904][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.904][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-05-06 19:59:26.905][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-05-06 19:59:26.906][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-05-06 19:59:26.906][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-05-06 19:59:26.906][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-05-06 19:59:26.906][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-05-06 19:59:26.906][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.906][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.907][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-05-06 19:59:26.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-05-06 19:59:26.907][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-05-06 19:59:26.907][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-05-06 19:59:26.908][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-06 19:59:26.908][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-05-06 19:59:26.908][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.908][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.908][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-05-06 19:59:26.908][self$setPropertyValue]
biodb.DEBUG[2024-05-06 19:59:26.909][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-05-06 19:59:26.909][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-05-06 19:59:26.910][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-05-06 19:59:26.910][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-05-06 19:59:26.910][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-05-06 19:59:26.911][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:26.912][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-05-06 19:59:26.912][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:26.912][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:26.913][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.913][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.913][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-05-06 19:59:26.914][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-05-06 19:59:26.914][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-05-06 19:59:26.914][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-05-06 19:59:26.914][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-05-06 19:59:26.914][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-05-06 19:59:26.915][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-05-06 19:59:26.915][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-05-06 19:59:26.915][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-05-06 19:59:26.916][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:26.916][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.916][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.916][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-05-06 19:59:26.917][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-05-06 19:59:26.917][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-05-06 19:59:26.918][biodb::testThat]
biodb.INFO [2024-05-06 19:59:26.918][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-05-06 19:59:26.918][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-05-06 19:59:26.918][biodb::testThat]
biodb.DEBUG[2024-05-06 19:59:26.921][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-06 19:59:26.922][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-05-06 19:59:26.922][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-05-06 19:59:26.923][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.924][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.924][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:26.925][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.925][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:26.925][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:26.926][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:26.926][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:26.926][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:26.926][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-06 19:59:26.927][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-05-06 19:59:26.927][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-05-06 19:59:26.927][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-06 19:59:26.928][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:26.928][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-06 19:59:26.929][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-05-06 19:59:26.929][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-06 19:59:26.930][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-05-06 19:59:26.930][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-06 19:59:26.931][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-06 19:59:26.931][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-06 19:59:26.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:26.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:26.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:26.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:26.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:26.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:26.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-06 19:59:26.936][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.936][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.937][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.938][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.939][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.939][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.940][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:26.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.941][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.941][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.941][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.942][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.943][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.943][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.944][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.944][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.946][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.947][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.947][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.948][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.949][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.950][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.950][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.950][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:26.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.951][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.952][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.952][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.952][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:26.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.956][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.956][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.957][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.957][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.958][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.958][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.959][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.959][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:26.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.960][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:26.960][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:26.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.961][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.961][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:26.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.962][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:26.962][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:26.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.963][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:26.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:26.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.964][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.965][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:26.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.966][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.966][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.967][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:26.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.968][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.968][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.969][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:26.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:26.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.970][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.971][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.971][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.971][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:26.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:26.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.972][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:26.973][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:26.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.973][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.974][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:26.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:26.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.975][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:26.975][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.975][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.976][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:26.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:26.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:26.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:26.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.980][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.981][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.982][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:26.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.986][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.987][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.988][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:26.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:26.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:26.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.996][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.997][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:26.999][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:26.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:26.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.000][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.001][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.002][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.003][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.004][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.006][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.007][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.008][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.009][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:27.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:27.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:27.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:27.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.011][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:27.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:27.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:27.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:27.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:27.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:27.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:27.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:27.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.019][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.020][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.021][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.025][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.027][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.028][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.029][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.030][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.031][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.032][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.033][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:27.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:27.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:27.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:27.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:27.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:27.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.035][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:27.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.038][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.043][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:27.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.044][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.046][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.049][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.050][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.051][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:27.057][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-05-06 19:59:27.058][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.059][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.059][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.060][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:27.061][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-06 19:59:27.061][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-06 19:59:27.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:27.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:27.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:27.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:27.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:27.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:27.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:27.065][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-05-06 19:59:27.065][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-05-06 19:59:27.066][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:27.066][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-05-06 19:59:27.066][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-05-06 19:59:27.067][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-05-06 19:59:27.067][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-05-06 19:59:27.067][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-05-06 19:59:27.068][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-05-06 19:59:27.068][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-05-06 19:59:27.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:27.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:27.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:27.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:27.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:27.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:27.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-06 19:59:27.074][ef$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.074][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.075][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.076][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.076][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.077][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.077][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.078][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.078][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.078][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.079][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.080][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.080][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.080][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.081][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.082][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.083][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.084][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.084][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.085][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.085][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.086][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.086][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.087][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.087][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.088][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.088][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.089][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.089][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.089][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.090][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.091][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.091][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.091][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.091][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.092][ef$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:27.093][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:27.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.093][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.093][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:27.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:27.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.094][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:27.094][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:27.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.095][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:27.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:27.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.098][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.098][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.098][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.100][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.100][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.100][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.101][ef$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.102][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.102][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.103][ef$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.104][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.104][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.104][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:27.105][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:27.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.106][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:27.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:27.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.107][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:27.107][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.107][ef$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.108][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-05-06 19:59:27.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.111][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.112][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.113][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-05-06 19:59:27.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.114][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.115][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.116][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-05-06 19:59:27.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-05-06 19:59:27.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-05-06 19:59:27.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.123][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.125][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-05-06 19:59:27.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.126][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.127][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.128][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-05-06 19:59:27.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.129][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.130][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.131][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-05-06 19:59:27.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.131][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.132][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.133][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.134][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:27.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:27.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:27.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:27.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-05-06 19:59:27.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-05-06 19:59:27.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:27.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:27.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:27.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:27.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-05-06 19:59:27.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-05-06 19:59:27.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.142][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.143][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.143][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-05-06 19:59:27.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-05-06 19:59:27.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.150][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.151][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.152][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.153][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-05-06 19:59:27.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.154][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.155][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.155][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-05-06 19:59:27.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.156][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:27.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:27.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.157][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:27.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:27.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.158][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-05-06 19:59:27.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-05-06 19:59:27.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.159][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:27.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.162][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-05-06 19:59:27.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-05-06 19:59:27.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.165][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.166][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-05-06 19:59:27.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-05-06 19:59:27.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.168][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.169][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.170][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-05-06 19:59:27.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-05-06 19:59:27.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-05-06 19:59:27.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:27.178][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-05-06 19:59:27.178][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.179][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.180][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.181][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:27.182][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-06 19:59:27.182][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:27.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:27.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:27.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:27.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:27.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:27.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:27.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-05-06 19:59:27.186][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-06 19:59:27.186][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-05-06 19:59:27.187][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-05-06 19:59:27.187][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:27.187][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:27.188][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:27.188][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:27.188][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:27.189][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:27.189][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:27.189][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:27.189][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:27.190][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-06 19:59:27.190][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-06 19:59:27.190][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.191][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.192][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.193][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.194][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.195][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.196][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:27.196][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-06 19:59:27.197][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-06 19:59:27.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:27.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:27.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:27.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:27.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:27.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:27.201][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.TRACE[2024-05-06 19:59:27.201][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.202][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.203][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.204][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.205][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.206][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:27.208][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-05-06 19:59:27.208][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-06 19:59:27.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:27.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:27.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:27.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:27.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:27.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:27.210][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[2024-05-06 19:59:27.212][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-05-06 19:59:27.212][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-05-06 19:59:27.212][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-05-06 19:59:27.213][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:27.213][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:27.213][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-05-06 19:59:27.214][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-05-06 19:59:27.214][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-05-06 19:59:27.214][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-05-06 19:59:27.214][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-05-06 19:59:27.215][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-05-06 19:59:27.215][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-05-06 19:59:27.215][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-05-06 19:59:27.215][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-05-06 19:59:27.216][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.217][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.217][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.218][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.219][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.220][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.221][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:27.222][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-05-06 19:59:27.222][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-05-06 19:59:27.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:27.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:27.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:27.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:27.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:27.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:27.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-05-06 19:59:27.225][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.227][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.229][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.229][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.230][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.231][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-05-06 19:59:27.232][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-05-06 19:59:27.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-05-06 19:59:27.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-05-06 19:59:27.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-05-06 19:59:27.233][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-05-06 19:59:27.233][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-05-06 19:59:27.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-05-06 19:59:27.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:27.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:27.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:27.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:27.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:27.236][FUN] Functions in observer BiodbConfig: [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 [2024-05-06 19:59:27.238][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-05-06 19:59:27.238][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-05-06 19:59:27.238][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-05-06 19:59:27.239][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-05-06 19:59:27.239][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-05-06 19:59:27.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-05-06 19:59:27.239][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-05-06 19:59:27.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-05-06 19:59:27.240][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-05-06 19:59:27.240][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  2.679   0.159  10.735

Example timings