Multiple platform build/check report for BioC 3.19 - CHECK results for biodbHmdb on merida1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4741
palomino7	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4483
merida1	macOS 12.7.4 Monterey	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4512
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.1 (2024-06-14) -- "Race for Your Life"	4461
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

CHECK results for biodbHmdb on merida1

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

raw results

Summary

Package: biodbHmdb

Version: 1.10.0

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: 2024-07-11 01:05:55 -0400 (Thu, 11 Jul 2024)

EndedAt: 2024-07-11 01:07:50 -0400 (Thu, 11 Jul 2024)

EllapsedTime: 115.0 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/meat/biodbHmdb.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.5
* 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 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.19-bioc/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

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


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

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2024-07-11 01:07:03.388][biodb::testContext]
biodb.INFO [2024-07-11 01:07:03.395][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-11 01:07:03.398][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2024-07-11 01:07:03.401][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-11 01:07:03.403][biodb::testContext]
biodb.INFO [2024-07-11 01:07:03.407][biodb::testThat]
biodb.INFO [2024-07-11 01:07:03.410][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2024-07-11 01:07:03.412][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:03.415][biodb::testThat]
biodb.INFO [2024-07-11 01:07:03.657][biodb::testContext]
biodb.INFO [2024-07-11 01:07:03.662][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-11 01:07:03.665][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-11 01:07:03.667][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-11 01:07:03.669][biodb::testContext]
biodb.INFO [2024-07-11 01:07:03.692][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-07-11 01:07:03.697][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-11 01:07:03.713][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:03.715][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-11 01:07:03.718][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-11 01:07:03.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.727][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-11 01:07:03.796][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-11 01:07:03.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.806][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-11 01:07:03.808][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-11 01:07:03.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.818][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-11 01:07:03.821][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-11 01:07:03.824][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-11 01:07:03.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.830][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[2024-07-11 01:07:03.832][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-11 01:07:03.838][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-11 01:07:03.841][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-11 01:07:03.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.852][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-11 01:07:03.855][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-11 01:07:03.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.863][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-11 01:07:03.866][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-11 01:07:03.869][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-11 01:07:03.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.880][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-11 01:07:03.883][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-11 01:07:03.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.892][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-11 01:07:03.895][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-11 01:07:03.898][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-11 01:07:03.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.907][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-11 01:07:03.910][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-11 01:07:03.912][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-11 01:07:03.915][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-11 01:07:03.918][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-11 01:07:03.921][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-11 01:07:03.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.930][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-11 01:07:03.934][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-11 01:07:03.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.944][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-11 01:07:03.948][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-11 01:07:03.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.957][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-11 01:07:03.960][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-11 01:07:03.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.973][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-11 01:07:03.977][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-11 01:07:03.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:03.988][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-11 01:07:03.991][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-11 01:07:03.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:03.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:03.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.000][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-11 01:07:04.003][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-11 01:07:04.027][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-11 01:07:04.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.036][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-11 01:07:04.038][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-11 01:07:04.041][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-11 01:07:04.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.055][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-11 01:07:04.153][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.201][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-11 01:07:04.204][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.206][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:04.208][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.211][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.214][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.216][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.218][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-11 01:07:04.223][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:04.225][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.228][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-11 01:07:04.230][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:04.235][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.238][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.240][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:04.240][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-11 01:07:04.240][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-11 01:07:04.240][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-11 01:07:04.240][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-11 01:07:04.242][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:04.244][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:04.247][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:04.249][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:04.252][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:04.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:04.257][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.269][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.272][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:04.274][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:04.277][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.281][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.284][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-11 01:07:04.288][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.292][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-11 01:07:04.296][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.298][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:04.300][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.304][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.306][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.308][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.311][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-11 01:07:04.314][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:04.316][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.318][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-11 01:07:04.320][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:04.324][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.328][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.330][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:04.330][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-11 01:07:04.330][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-11 01:07:04.330][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-11 01:07:04.330][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-11 01:07:04.333][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:04.335][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:04.338][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:04.340][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:04.342][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:04.344][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:04.346][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.349][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.353][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:04.355][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:04.357][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.360][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.363][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-11 01:07:04.369][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.371][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-11 01:07:04.374][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.377][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:04.379][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.382][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.385][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.388][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.390][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-11 01:07:04.393][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:04.395][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.397][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-11 01:07:04.400][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:04.402][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.405][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.407][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.411][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:04.414][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:04.416][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:04.419][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:04.421][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:04.423][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:04.425][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.430][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.433][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:04.435][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:04.438][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.441][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.444][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-11 01:07:04.449][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.452][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-11 01:07:04.454][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.456][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:04.459][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.461][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.464][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.466][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.469][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-11 01:07:04.473][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:04.476][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.479][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-11 01:07:04.482][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:04.485][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.488][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:04.491][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.493][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:04.496][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:04.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:04.500][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:04.502][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:04.504][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:04.508][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:04.510][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.513][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:04.515][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:04.518][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:04.520][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:04.529][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:04.531][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:04.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:04.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:04.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:04.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:04.759][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[2024-07-11 01:07:04.762][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-11 01:07:04.781][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-11 01:07:04.784][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-11 01:07:04.789][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-11 01:07:04.793][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-11 01:07:04.796][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-11 01:07:04.802][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-11 01:07:04.806][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-11 01:07:04.809][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-11 01:07:04.813][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-11 01:07:04.817][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-11 01:07:04.821][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-11 01:07:04.826][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-11 01:07:04.831][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-11 01:07:04.835][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-11 01:07:04.840][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-11 01:07:04.844][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-11 01:07:04.848][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-11 01:07:04.852][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-11 01:07:04.857][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-11 01:07:04.862][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-11 01:07:04.865][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-11 01:07:04.869][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-11 01:07:04.874][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-11 01:07:04.878][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-11 01:07:04.881][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-11 01:07:04.885][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-11 01:07:04.888][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-11 01:07:04.891][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-11 01:07:04.896][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-11 01:07:04.900][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-11 01:07:04.903][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-11 01:07:04.907][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-11 01:07:04.911][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-11 01:07:04.915][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-11 01:07:04.920][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-11 01:07:04.924][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-11 01:07:04.932][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-11 01:07:04.936][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-11 01:07:04.939][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-11 01:07:04.943][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-11 01:07:04.947][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-11 01:07:04.950][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-11 01:07:04.956][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-11 01:07:04.959][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-11 01:07:04.963][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-11 01:07:04.967][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-11 01:07:04.971][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-11 01:07:04.975][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-11 01:07:04.980][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-11 01:07:04.983][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-11 01:07:04.986][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-11 01:07:04.991][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-11 01:07:04.994][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-11 01:07:04.997][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-11 01:07:05.002][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-11 01:07:05.006][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-11 01:07:05.010][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-11 01:07:05.014][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-11 01:07:05.018][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-11 01:07:05.022][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-11 01:07:05.026][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-11 01:07:05.029][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-11 01:07:05.033][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-11 01:07:05.036][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-11 01:07:05.040][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-11 01:07:05.044][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-11 01:07:05.048][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-11 01:07:05.051][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-11 01:07:05.055][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-11 01:07:05.059][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-11 01:07:05.063][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-11 01:07:05.067][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-11 01:07:05.071][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-11 01:07:05.075][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-11 01:07:05.079][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-11 01:07:05.082][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-11 01:07:05.086][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-11 01:07:05.089][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-11 01:07:05.093][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-11 01:07:05.097][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-11 01:07:05.101][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-11 01:07:05.105][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-11 01:07:05.121][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-11 01:07:05.125][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-07-11 01:07:05.131][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:05.133][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.139][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.344][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[2024-07-11 01:07:05.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.362][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[2024-07-11 01:07:05.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.421][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[2024-07-11 01:07:05.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.437][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[2024-07-11 01:07:05.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:05.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:05.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.473][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[2024-07-11 01:07:05.478][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-11 01:07:05.505][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:05.510][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:05.512][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-11 01:07:05.515][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:05.517][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:05.520][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:05.522][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-11 01:07:05.525][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:05.528][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:05.530][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-11 01:07:05.533][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:05.535][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:05.538][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-11 01:07:05.540][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-11 01:07:05.544][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-11 01:07:05.548][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:05.551][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:05.551][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-11 01:07:05.551][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-11 01:07:05.554][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-11 01:07:05.558][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:05.560][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:05.563][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:05.565][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:05.568][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:05.570][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:05.573][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-11 01:07:05.573][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-11 01:07:05.575][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:05.579][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:05.582][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:05.585][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:05.600][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-11 01:07:05.603][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-11 01:07:05.609][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-11 01:07:05.612][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-11 01:07:05.616][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-11 01:07:05.666][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:05.669][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-11 01:07:05.678][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:05.688][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:05.698][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:05.701][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:05.704][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-11 01:07:05.707][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-11 01:07:05.709][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-11 01:07:05.709][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-11 01:07:05.711][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:05.714][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:05.717][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-11 01:07:05.720][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-11 01:07:05.723][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:05.786][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:05.790][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:05.793][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:05.796][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:05.799][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:05.802][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-11 01:07:05.818][biodb::testThat]
biodb.INFO [2024-07-11 01:07:05.823][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-07-11 01:07:05.826][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:05.829][biodb::testThat]
biodb.TRACE[2024-07-11 01:07:05.837][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2024-07-11 01:07:05.841][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-11 01:07:05.849][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-11 01:07:05.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:05.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:05.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:05.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:05.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:05.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:05.890][FUN] Functions in observer BiodbConfig: [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[2024-07-11 01:07:05.914][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:05.917][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:05.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:05.922][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:05.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:05.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:05.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:05.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:05.972][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:05.975][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:05.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:05.980][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.060][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:06.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:06.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.071][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.074][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.079][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.082][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.093][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.096][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.100][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.103][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.121][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.139][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.142][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.147][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.162][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.164][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.169][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.172][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.183][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:06.186][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:06.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.202][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.206][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:06.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:06.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.217][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.220][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.226][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.230][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.241][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.244][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.249][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.252][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.264][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:06.267][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:06.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.273][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.276][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:06.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:06.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.288][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:06.291][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:06.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.296][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:06.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:06.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.311][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.313][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.318][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:06.337][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:06.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.342][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:06.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:06.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.357][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:06.360][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:06.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.365][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.369][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:06.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:06.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.380][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:06.382][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:06.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.388][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.391][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:06.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:06.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.402][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:06.406][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:06.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.411][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.414][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:06.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:06.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.425][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:06.429][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:06.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.434][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.437][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:06.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:06.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:06.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:06.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:06.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:06.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:06.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:06.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.588][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.610][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:06.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.634][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.643][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.653][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:06.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:06.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:06.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.735][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.748][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.760][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:06.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.770][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.782][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.792][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:06.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.802][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:06.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:06.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.812][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:06.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:06.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.824][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:06.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:06.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.834][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:06.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:06.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.844][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:06.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:06.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.853][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:06.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:06.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:06.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:06.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.871][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:06.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:06.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.881][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:06.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:06.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:06.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:06.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:06.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:06.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.912][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:06.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:06.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.941][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:06.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.961][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.970][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:06.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:06.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:06.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:06.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:06.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:06.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:07.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:07.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:07.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.014][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:07.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:07.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:07.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:07.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:07.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:07.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.043][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.053][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.063][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.074][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.084][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.093][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.102][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:07.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:07.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:07.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:07.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.120][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:07.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:07.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.130][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:07.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:07.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:07.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:07.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:07.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:07.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:07.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:07.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.169][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:07.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:07.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.233][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:07.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:07.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:07.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:07.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:07.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:07.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:07.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:07.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.275][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:07.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:07.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.286][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.297][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.319][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:07.395][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-11 01:07:07.401][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-11 01:07:07.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-11 01:07:07.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.411][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-11 01:07:07.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-11 01:07:07.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.423][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-11 01:07:07.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-11 01:07:07.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.432][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-11 01:07:07.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-11 01:07:07.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.531][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.617][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.627][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.637][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:07.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.697][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.699][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.704][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:07.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:07.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.736][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.746][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.756][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.767][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.770][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.785][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.787][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:07.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.848][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.851][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.856][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:07.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.891][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.902][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.912][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.923][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.926][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.933][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:07.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:07.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:07.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:07.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:07.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:07.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:07.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:07.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:07.993][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:07.996][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:07.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.001][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:08.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:08.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.034][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.045][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.056][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.067][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.069][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.074][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.077][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:08.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.107][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:08.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:08.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:08.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:08.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:08.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:08.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.135][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:08.138][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:08.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.143][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.146][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:08.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:08.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.181][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:08.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:08.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.190][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:08.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:08.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.200][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:08.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:08.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.209][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:08.211][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:08.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.216][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.218][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:08.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:08.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.246][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:08.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:08.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.257][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:08.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:08.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:08.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:08.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.278][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:08.280][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:08.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.285][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.287][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:08.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:08.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.315][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.327][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.337][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.347][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.349][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.354][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.356][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:08.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.417][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.425][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:08.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.457][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.468][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.479][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.495][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.497][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.502][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.505][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:08.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.544][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.555][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.570][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.581][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.583][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.589][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.591][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:08.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.620][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.629][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.638][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.649][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.653][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.658][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.661][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:08.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.696][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:08.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:08.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.709][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:08.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:08.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.720][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:08.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:08.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.729][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:08.731][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:08.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.736][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.738][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:08.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:08.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:08.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:08.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:08.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:08.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:08.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:08.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.800][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:08.802][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:08.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.807][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:08.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:08.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.845][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.871][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.882][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.889][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:08.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.939][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.948][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.957][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.960][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.965][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.968][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:08.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:08.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:08.998][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:09.003][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:09.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.008][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.020][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:09.023][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:09.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.029][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.041][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:09.044][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:09.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.050][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:09.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:09.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.069][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.082][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:09.084][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:09.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.090][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.102][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:09.105][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:09.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.111][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.123][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:09.126][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:09.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.145][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:09.147][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:09.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.153][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.165][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:09.168][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:09.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.185][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:09.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:09.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.204][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:09.207][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:09.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.224][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:09.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:09.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.232][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.243][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:09.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:09.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.252][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.265][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:09.268][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:09.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.273][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.286][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:09.288][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:09.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.294][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.306][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:09.309][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:09.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.315][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.326][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:09.328][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:09.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.341][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.354][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:09.357][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:09.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.362][ef$get] fields variable is a list.
biodb.INFO [2024-07-11 01:07:09.383][biodb::testThat]
biodb.INFO [2024-07-11 01:07:09.385][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-11 01:07:09.388][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:09.390][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:09.428][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-11 01:07:09.444][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-11 01:07:09.456][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:09.459][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-11 01:07:09.464][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-11 01:07:09.468][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-11 01:07:09.472][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-11 01:07:09.475][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-11 01:07:09.542][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-11 01:07:09.545][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-11 01:07:09.549][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:09.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:09.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:09.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:09.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:09.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:09.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-11 01:07:09.582][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:09.585][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:09.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.590][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:09.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:09.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.604][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:09.607][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:09.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.616][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:09.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:09.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.627][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:09.630][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:09.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.635][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.638][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:09.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:09.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.648][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:09.650][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:09.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.655][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.658][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:09.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:09.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:09.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:09.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.674][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:09.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:09.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.688][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:09.691][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:09.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.695][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:09.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:09.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.718][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:09.720][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:09.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.725][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.728][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:09.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:09.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.737][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:09.740][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:09.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.746][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.749][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:09.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:09.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.759][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:09.762][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:09.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.767][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.770][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:09.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:09.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.781][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:09.783][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:09.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.788][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.791][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:09.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:09.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.802][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:09.805][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:09.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.809][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.812][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:09.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:09.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.822][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:09.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:09.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.831][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:09.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:09.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.844][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:09.847][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:09.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:09.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:09.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.865][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:09.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:09.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.873][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:09.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:09.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.886][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:09.889][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:09.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.893][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:09.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:09.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.909][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:09.911][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:09.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.916][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.919][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:09.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:09.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.930][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:09.932][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:09.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.937][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.942][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:09.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:09.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.952][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:09.955][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:09.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.961][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.964][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:09.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:09.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:09.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:09.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:09.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:09.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:09.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:09.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:10.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.007][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:10.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:10.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.019][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:10.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:10.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.031][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:10.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:10.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.043][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:10.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:10.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.054][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:10.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:10.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.066][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:10.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:10.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:10.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:10.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:10.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:10.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:10.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:10.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:10.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:10.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:10.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:10.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:10.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.145][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:10.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:10.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.156][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:10.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:10.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.167][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:10.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:10.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.177][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:10.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:10.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.187][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:10.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:10.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.196][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:10.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:10.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:10.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:10.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.216][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:10.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:10.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.227][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:10.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:10.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.239][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:10.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:10.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.252][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:10.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:10.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.265][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:10.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:10.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:10.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:10.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.289][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:10.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:10.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:10.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:10.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:10.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:10.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:10.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:10.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.332][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:10.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:10.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.342][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.374][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:10.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:10.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.384][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:10.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:10.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.394][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:10.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:10.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:10.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:10.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:10.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:10.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:10.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:10.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.479][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:10.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:10.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.488][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:10.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:10.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.499][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:10.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:10.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.511][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:10.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:10.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.520][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:10.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:10.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.531][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:10.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:10.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.540][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:10.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:10.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:10.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:10.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.560][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:10.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:10.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.571][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:10.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.582][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.602][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.613][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:10.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:10.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.669][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.679][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:10.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:10.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.690][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:10.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:10.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:10.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:10.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.711][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:10.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:10.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:10.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:10.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:10.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:10.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:10.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:10.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:10.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:10.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:10.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:10.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:10.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:10.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:10.786][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-11 01:07:10.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-11 01:07:10.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-11 01:07:10.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-11 01:07:10.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-11 01:07:10.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:10.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-11 01:07:10.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-11 01:07:10.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-11 01:07:10.927][biodb::testThat]
biodb.INFO [2024-07-11 01:07:10.930][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-11 01:07:10.939][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:10.941][biodb::testThat]
biodb.TRACE[2024-07-11 01:07:10.948][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:10.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:10.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:10.959][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:10.968][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2024-07-11 01:07:11.049][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.061][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.086][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2024-07-11 01:07:11.090][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-11 01:07:11.092][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-11 01:07:11.094][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-11 01:07:11.098][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.101][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.106][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:11.110][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.112][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:11.115][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:11.118][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:11.121][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:11.124][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:11.127][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-11 01:07:11.129][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-11 01:07:11.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.164][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.174][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-11 01:07:11.177][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-11 01:07:11.180][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-11 01:07:11.210][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:11.214][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:11.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.219][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.222][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2024-07-11 01:07:11.254][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:11.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:11.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.265][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:11.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:11.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.278][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:11.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:11.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.297][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[2024-07-11 01:07:11.457][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-11 01:07:11.459][private$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[2024-07-11 01:07:11.462][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2024-07-11 01:07:11.500][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.504][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.507][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:11.512][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.514][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:11.556][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:11.560][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:11.563][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:11.565][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:11.567][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-11 01:07:11.570][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-11 01:07:11.574][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:11.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:11.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.584][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:11.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:11.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.593][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:11.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:11.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.602][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:11.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:11.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.612][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-11 01:07:11.614][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-11 01:07:11.624][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2024-07-11 01:07:11.654][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.656][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.661][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.664][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2024-07-11 01:07:11.694][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.704][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.715][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.731][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2024-07-11 01:07:11.735][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2024-07-11 01:07:11.737][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-11 01:07:11.739][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2024-07-11 01:07:11.743][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.747][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.750][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:11.753][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.756][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:11.759][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:11.761][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:11.764][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:11.766][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:11.768][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-11 01:07:11.771][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-11 01:07:11.775][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.786][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.795][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.805][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:11.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.815][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-11 01:07:11.817][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-11 01:07:11.819][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2024-07-11 01:07:11.859][biodb::testThat]
biodb.INFO [2024-07-11 01:07:11.862][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-07-11 01:07:11.864][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:11.866][biodb::testThat]
biodb.TRACE[2024-07-11 01:07:11.894][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:11.915][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:11.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:11.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:11.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:11.951][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2024-07-11 01:07:11.953][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-11 01:07:11.955][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2024-07-11 01:07:11.960][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.963][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.966][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:11.969][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:11.971][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:11.974][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:11.977][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:11.979][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:11.981][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:11.984][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-11 01:07:11.994][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-11 01:07:11.998][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:12.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:12.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:12.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:12.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:12.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:12.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.027][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:12.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:12.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:12.037][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-11 01:07:12.039][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2024-07-11 01:07:12.074][biodb::testThat]
biodb.INFO [2024-07-11 01:07:12.076][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-07-11 01:07:12.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:12.080][biodb::testThat]
biodb.TRACE[2024-07-11 01:07:12.134][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-11 01:07:12.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-11 01:07:12.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.146][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-11 01:07:12.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-11 01:07:12.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.158][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-11 01:07:12.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-11 01:07:12.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.170][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-11 01:07:12.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-11 01:07:12.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.300][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-11 01:07:12.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-11 01:07:12.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-11 01:07:12.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-11 01:07:12.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.327][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-11 01:07:12.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-11 01:07:12.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:12.337][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-11 01:07:12.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-11 01:07:12.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:12.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-11 01:07:12.358][biodb::testThat]
biodb.INFO [2024-07-11 01:07:12.360][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-11 01:07:12.362][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:12.365][biodb::testThat]
biodb.INFO [2024-07-11 01:07:12.383][biodb::testThat]
biodb.INFO [2024-07-11 01:07:12.386][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-11 01:07:12.388][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:12.390][biodb::testThat]
biodb.INFO [2024-07-11 01:07:12.409][biodb::testThat]
biodb.INFO [2024-07-11 01:07:12.412][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-11 01:07:12.414][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:12.416][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:12.426][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2024-07-11 01:07:20.810][getUrlContent] Use base::url() for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2024-07-11 01:07:26.948][biodb::testThat]
biodb.INFO [2024-07-11 01:07:26.950][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-11 01:07:26.953][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:26.955][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:31.999][getUrlContent] Use RCurl for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2024-07-11 01:07:32.056][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:32.059][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:32.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.063][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.066][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:32.069][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:32.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.073][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.075][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:32.078][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:32.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.083][ef$get] fields variable is a list.
biodb.INFO [2024-07-11 01:07:32.086][biodb::testThat]
biodb.INFO [2024-07-11 01:07:32.089][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-07-11 01:07:32.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:32.093][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:32.097][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-11 01:07:32.243][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-11 01:07:32.247][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.251][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-11 01:07:32.295][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-11 01:07:32.298][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-11 01:07:32.301][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-11 01:07:32.304][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-11 01:07:32.308][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.311][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-11 01:07:32.314][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-11 01:07:32.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:32.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:32.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:32.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:32.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:32.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:32.345][FUN] Functions in observer BiodbConfig: [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[2024-07-11 01:07:32.349][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:32.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:32.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.360][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:32.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:32.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:32.444][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-11 01:07:32.447][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-11 01:07:32.493][biodb::testThat]
biodb.INFO [2024-07-11 01:07:32.496][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-11 01:07:32.499][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:32.501][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:32.575][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2024-07-11 01:07:32.580][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2024-07-11 01:07:32.582][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-11 01:07:32.586][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.590][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-11 01:07:32.596][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2024-07-11 01:07:32.598][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-11 01:07:32.603][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-11 01:07:32.606][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-11 01:07:32.609][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.612][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-11 01:07:32.616][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-11 01:07:32.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:32.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:32.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:32.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:32.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:32.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:32.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-11 01:07:32.657][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:32.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:32.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.670][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:32.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:32.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:32.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:32.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:32.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:32.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:32.764][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2024-07-11 01:07:32.766][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-11 01:07:32.770][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2024-07-11 01:07:32.812][biodb::testThat]
biodb.INFO [2024-07-11 01:07:32.814][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-07-11 01:07:32.816][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:32.818][biodb::testThat]
biodb.INFO [2024-07-11 01:07:32.883][biodb::testThat]
biodb.INFO [2024-07-11 01:07:32.886][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-07-11 01:07:32.889][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:32.892][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:32.899][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.904][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.908][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:32.924][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.926][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:32.931][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:32.934][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:32.936][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:32.939][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2024-07-11 01:07:32.959][biodb::testThat]
biodb.INFO [2024-07-11 01:07:32.962][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-07-11 01:07:32.966][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:32.969][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:32.974][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.980][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.984][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:32.987][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:32.991][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:32.994][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:32.996][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:33.000][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:33.002][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2024-07-11 01:07:33.027][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:33.030][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:33.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:33.037][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:33.040][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:33.042][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:33.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:33.047][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:33.050][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:33.053][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:33.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:33.059][ef$get] fields variable is a list.
biodb.INFO [2024-07-11 01:07:33.062][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-11 01:07:33.065][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-11 01:07:33.089][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-11 01:07:33.092][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-11 01:07:33.094][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:33.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:33.098][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.103][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.105][FUN] Functions in observer BiodbConfig: [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 [2024-07-11 01:07:33.114][biodb::testContext]
biodb.INFO [2024-07-11 01:07:33.117][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-11 01:07:33.119][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2024-07-11 01:07:33.122][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-11 01:07:33.125][biodb::testContext]
biodb.INFO [2024-07-11 01:07:33.134][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-07-11 01:07:33.138][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-11 01:07:33.147][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:33.149][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-11 01:07:33.152][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-11 01:07:33.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.161][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-11 01:07:33.164][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-11 01:07:33.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.173][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-11 01:07:33.176][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-11 01:07:33.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.185][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-11 01:07:33.188][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-11 01:07:33.191][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-11 01:07:33.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.201][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-11 01:07:33.204][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-11 01:07:33.207][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-11 01:07:33.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.218][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-11 01:07:33.221][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-11 01:07:33.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.231][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-11 01:07:33.242][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-11 01:07:33.244][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-11 01:07:33.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.256][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-11 01:07:33.258][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-11 01:07:33.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.267][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-11 01:07:33.269][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-11 01:07:33.272][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-11 01:07:33.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.281][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-11 01:07:33.283][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-11 01:07:33.286][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-11 01:07:33.289][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-11 01:07:33.291][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-11 01:07:33.295][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-11 01:07:33.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.304][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-11 01:07:33.308][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-11 01:07:33.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.317][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-11 01:07:33.320][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-11 01:07:33.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.330][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-11 01:07:33.333][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-11 01:07:33.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.340][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-11 01:07:33.343][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-11 01:07:33.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.353][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-11 01:07:33.356][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-11 01:07:33.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.366][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-11 01:07:33.369][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-11 01:07:33.389][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-11 01:07:33.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.398][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-11 01:07:33.400][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-11 01:07:33.403][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-11 01:07:33.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.413][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-11 01:07:33.418][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.421][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-11 01:07:33.423][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.425][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:33.428][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.431][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.434][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.436][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.438][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-11 01:07:33.441][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:33.444][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.446][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-11 01:07:33.449][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:33.452][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.454][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.457][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:33.457][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-11 01:07:33.457][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-11 01:07:33.457][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-11 01:07:33.457][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-11 01:07:33.459][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:33.462][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:33.464][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:33.467][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:33.470][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:33.473][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:33.475][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.478][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.481][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:33.483][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:33.485][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.487][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.490][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-11 01:07:33.493][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.496][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-11 01:07:33.498][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.500][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:33.503][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.506][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.508][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.511][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.513][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-11 01:07:33.516][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:33.519][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.521][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-11 01:07:33.523][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:33.527][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.529][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.540][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:33.540][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-11 01:07:33.540][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-11 01:07:33.540][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-11 01:07:33.540][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-11 01:07:33.543][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:33.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:33.549][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:33.551][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:33.553][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:33.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:33.557][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.560][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.563][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:33.565][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:33.567][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.571][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.574][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-11 01:07:33.579][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.582][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-11 01:07:33.584][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.587][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:33.589][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.593][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.595][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.597][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.600][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-11 01:07:33.603][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:33.605][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.608][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-11 01:07:33.610][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:33.613][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.616][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.618][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.620][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:33.622][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:33.625][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:33.627][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:33.630][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:33.632][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:33.634][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.637][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.639][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:33.641][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:33.643][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.646][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.649][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-11 01:07:33.654][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.656][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-11 01:07:33.659][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.661][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:33.663][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.666][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.669][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.671][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.674][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-11 01:07:33.677][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:33.679][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.682][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-11 01:07:33.684][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:33.688][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.690][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:33.692][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.695][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:33.698][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:33.700][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:33.702][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:33.705][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:33.707][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:33.710][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:33.713][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.715][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:33.717][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:33.720][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:33.722][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:33.725][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:33.727][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.752][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[2024-07-11 01:07:33.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.897][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[2024-07-11 01:07:33.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:33.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:33.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:33.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:33.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:33.935][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-11 01:07:33.939][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-11 01:07:33.943][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-11 01:07:33.947][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-11 01:07:33.951][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-11 01:07:33.954][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-11 01:07:33.958][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-11 01:07:33.962][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-11 01:07:33.966][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-11 01:07:33.970][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-11 01:07:33.974][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-11 01:07:33.978][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-11 01:07:33.982][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-11 01:07:33.986][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-11 01:07:33.992][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-11 01:07:33.995][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-11 01:07:33.999][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-11 01:07:34.003][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-11 01:07:34.007][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-11 01:07:34.011][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-11 01:07:34.015][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-11 01:07:34.018][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-11 01:07:34.022][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-11 01:07:34.027][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-11 01:07:34.031][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-11 01:07:34.035][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-11 01:07:34.038][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-11 01:07:34.042][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-11 01:07:34.047][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-11 01:07:34.051][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-11 01:07:34.055][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-11 01:07:34.060][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-11 01:07:34.063][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-11 01:07:34.067][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-11 01:07:34.071][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-11 01:07:34.075][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-11 01:07:34.079][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-11 01:07:34.083][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-11 01:07:34.087][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-11 01:07:34.090][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-11 01:07:34.094][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-11 01:07:34.097][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-11 01:07:34.109][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-11 01:07:34.114][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-11 01:07:34.118][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-11 01:07:34.121][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-11 01:07:34.125][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-11 01:07:34.128][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-11 01:07:34.132][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-11 01:07:34.136][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-11 01:07:34.140][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-11 01:07:34.143][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-11 01:07:34.147][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-11 01:07:34.150][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-11 01:07:34.154][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-11 01:07:34.158][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-11 01:07:34.161][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-11 01:07:34.165][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-11 01:07:34.168][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-11 01:07:34.172][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-11 01:07:34.176][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-11 01:07:34.179][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-11 01:07:34.184][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-11 01:07:34.188][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-11 01:07:34.193][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-11 01:07:34.197][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-11 01:07:34.202][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-11 01:07:34.206][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-11 01:07:34.210][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-11 01:07:34.214][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-11 01:07:34.217][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-11 01:07:34.221][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-11 01:07:34.225][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-11 01:07:34.228][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-11 01:07:34.231][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-11 01:07:34.235][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-11 01:07:34.238][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-11 01:07:34.241][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-11 01:07:34.245][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-11 01:07:34.248][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-11 01:07:34.253][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-11 01:07:34.257][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-11 01:07:34.260][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-11 01:07:34.264][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-11 01:07:34.267][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-07-11 01:07:34.270][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:34.272][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.276][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.342][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[2024-07-11 01:07:34.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.355][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[2024-07-11 01:07:34.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.424][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[2024-07-11 01:07:34.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.439][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[2024-07-11 01:07:34.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.468][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[2024-07-11 01:07:34.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.497][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[2024-07-11 01:07:34.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:34.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:34.551][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-11 01:07:34.554][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:34.559][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:34.562][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-11 01:07:34.564][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:34.567][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:34.569][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:34.572][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-11 01:07:34.574][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:34.578][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:34.580][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-11 01:07:34.582][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:34.584][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:34.588][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-11 01:07:34.591][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-11 01:07:34.593][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-11 01:07:34.596][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:34.598][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:34.598][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-11 01:07:34.598][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-11 01:07:34.601][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-11 01:07:34.604][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:34.606][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:34.608][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:34.611][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:34.613][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:34.615][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:34.618][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-11 01:07:34.618][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-11 01:07:34.620][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:34.622][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:34.625][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:34.627][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:34.631][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-11 01:07:34.635][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-11 01:07:34.638][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-11 01:07:34.651][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-11 01:07:34.657][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-11 01:07:34.665][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:34.667][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-11 01:07:34.671][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:34.674][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:34.677][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:34.679][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:34.682][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-11 01:07:34.684][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-11 01:07:34.687][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-11 01:07:34.687][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-11 01:07:34.689][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:34.691][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:34.693][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-11 01:07:34.695][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-11 01:07:34.698][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:34.702][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:34.705][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:34.708][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:34.712][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:34.715][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:34.718][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-11 01:07:34.721][biodb::testThat]
biodb.INFO [2024-07-11 01:07:34.724][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2024-07-11 01:07:34.726][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:34.728][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:34.737][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:34.740][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:34.744][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:34.747][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:34.749][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:34.754][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:34.757][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:34.759][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:34.761][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:34.768][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2024-07-11 01:07:34.782][biodb::testThat]
biodb.INFO [2024-07-11 01:07:34.786][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2024-07-11 01:07:34.789][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:34.791][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:34.795][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-11 01:07:34.798][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-11 01:07:34.802][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:34.805][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-11 01:07:34.810][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-11 01:07:34.813][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-11 01:07:34.817][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-11 01:07:34.819][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-11 01:07:34.822][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-11 01:07:34.825][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-11 01:07:34.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:34.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:34.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:34.845][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:34.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:34.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:34.852][FUN] Functions in observer BiodbConfig: [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[2024-07-11 01:07:34.859][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:34.861][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:34.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.868][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:34.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:34.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.882][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:34.884][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:34.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.889][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.892][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:34.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:34.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.902][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:34.905][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:34.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.909][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.912][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:34.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:34.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.923][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:34.927][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:34.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.942][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:34.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:34.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.953][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:34.955][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:34.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:34.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:34.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.975][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:34.978][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:34.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.982][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:34.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:34.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:34.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:34.994][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:34.997][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:34.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.001][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:35.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.014][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.017][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.023][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.026][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.035][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.037][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.044][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.048][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.058][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.060][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.066][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.069][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.079][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:35.082][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:35.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.088][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:35.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.104][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:35.106][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:35.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.111][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:35.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:35.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.125][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.127][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.132][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.145][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.148][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.153][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.166][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.168][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.176][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.187][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:35.189][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:35.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.194][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.197][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:35.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:35.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.207][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:35.209][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:35.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.225][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:35.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.236][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:35.239][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:35.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.245][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.248][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:35.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:35.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:35.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:35.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:35.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:35.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:35.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:35.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:35.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.299][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:35.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:35.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.309][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:35.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:35.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.318][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:35.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:35.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.329][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:35.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:35.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.340][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:35.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:35.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:35.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:35.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:35.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:35.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:35.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:35.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:35.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:35.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:35.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:35.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:35.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:35.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.414][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.425][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.435][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:35.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.445][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.454][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.464][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:35.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.476][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:35.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:35.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.486][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:35.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:35.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.505][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:35.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:35.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.515][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:35.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:35.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.525][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:35.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:35.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.535][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:35.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:35.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.548][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:35.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:35.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:35.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:35.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.567][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:35.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:35.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:35.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:35.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.589][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:35.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:35.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:35.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:35.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.629][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.640][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:35.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:35.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.651][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:35.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:35.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.662][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:35.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:35.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:35.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.709][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.723][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.733][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.746][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.758][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.769][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:35.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.780][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:35.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:35.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.802][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:35.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:35.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.814][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:35.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:35.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.824][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:35.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:35.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.836][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:35.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:35.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.847][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:35.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:35.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.859][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:35.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.904][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:35.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:35.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.951][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.961][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:35.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.972][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:35.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:35.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.983][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:35.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:35.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:35.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:35.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:35.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.005][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:36.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:36.075][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-11 01:07:36.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:36.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:36.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:36.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:36.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-11 01:07:36.137][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-11 01:07:36.141][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-11 01:07:36.145][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-11 01:07:36.147][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-11 01:07:36.149][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:36.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:36.153][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.157][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-11 01:07:36.167][biodb::testContext]
biodb.INFO [2024-07-11 01:07:36.169][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-11 01:07:36.172][biodb::testContext] Test context - Test search of entries
biodb.INFO [2024-07-11 01:07:36.175][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-11 01:07:36.177][biodb::testContext]
biodb.INFO [2024-07-11 01:07:36.187][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.12.0.
biodb.DEBUG[2024-07-11 01:07:36.191][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-11 01:07:36.200][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:36.203][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-11 01:07:36.206][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-11 01:07:36.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.215][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-11 01:07:36.218][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-11 01:07:36.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.228][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-11 01:07:36.231][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-11 01:07:36.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.236][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.DEBUG[2024-07-11 01:07:36.239][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-11 01:07:36.241][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-11 01:07:36.244][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-11 01:07:36.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.254][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-11 01:07:36.257][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-11 01:07:36.259][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-11 01:07:36.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.269][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-11 01:07:36.272][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-11 01:07:36.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.282][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-11 01:07:36.284][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-11 01:07:36.287][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-11 01:07:36.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.298][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-11 01:07:36.301][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-11 01:07:36.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.310][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-11 01:07:36.313][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-11 01:07:36.315][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-11 01:07:36.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.324][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-11 01:07:36.326][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-11 01:07:36.329][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-11 01:07:36.331][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-11 01:07:36.333][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-11 01:07:36.336][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-11 01:07:36.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.345][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-11 01:07:36.347][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-11 01:07:36.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.354][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[2024-07-11 01:07:36.356][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-11 01:07:36.359][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-11 01:07:36.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.369][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-11 01:07:36.372][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-11 01:07:36.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.393][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-11 01:07:36.396][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-11 01:07:36.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.405][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-11 01:07:36.407][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-11 01:07:36.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.414][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[2024-07-11 01:07:36.416][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-11 01:07:36.419][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-11 01:07:36.437][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-11 01:07:36.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.445][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-11 01:07:36.448][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-11 01:07:36.450][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-11 01:07:36.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.459][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-11 01:07:36.463][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.466][self$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[2024-07-11 01:07:36.468][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.471][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:36.473][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.476][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.478][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.481][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.483][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-11 01:07:36.486][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:36.489][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.491][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-11 01:07:36.494][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:36.496][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.499][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.501][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:36.501][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-11 01:07:36.501][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-11 01:07:36.501][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-11 01:07:36.501][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-11 01:07:36.504][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:36.507][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:36.509][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:36.511][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:36.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:36.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:36.519][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.522][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.524][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:36.526][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:36.529][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.532][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.536][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-11 01:07:36.540][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.543][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-11 01:07:36.546][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.548][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:36.550][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.553][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.556][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.558][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.561][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-11 01:07:36.564][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:36.566][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.570][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-11 01:07:36.572][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:36.575][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.578][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.580][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:36.580][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-11 01:07:36.580][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-11 01:07:36.580][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-11 01:07:36.580][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-11 01:07:36.583][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:36.586][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:36.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:36.591][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:36.594][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:36.598][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:36.600][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.603][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.605][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:36.608][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:36.610][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.613][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.616][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-11 01:07:36.621][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.623][self$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[2024-07-11 01:07:36.626][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.628][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:36.631][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.633][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.636][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.639][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.642][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-11 01:07:36.644][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:36.647][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.649][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-11 01:07:36.652][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:36.654][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.657][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.659][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.662][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:36.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:36.675][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:36.677][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:36.680][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:36.682][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:36.685][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.687][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.690][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:36.692][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:36.695][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.697][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.700][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-11 01:07:36.705][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.707][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-11 01:07:36.710][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.712][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:36.715][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.717][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.719][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.722][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.724][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-11 01:07:36.727][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:36.730][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.732][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-11 01:07:36.735][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:36.737][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.740][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:36.742][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.745][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-11 01:07:36.747][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:36.750][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:36.752][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:36.754][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:36.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:36.759][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:36.761][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.764][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:36.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:36.768][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:36.771][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:36.774][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:36.776][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.815][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[2024-07-11 01:07:36.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.827][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[2024-07-11 01:07:36.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.882][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[2024-07-11 01:07:36.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.892][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[2024-07-11 01:07:36.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:36.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:36.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:36.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:36.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:36.973][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-11 01:07:36.976][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-11 01:07:36.979][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-11 01:07:36.982][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-11 01:07:36.986][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-11 01:07:36.989][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-11 01:07:36.992][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-11 01:07:36.996][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-11 01:07:37.000][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-11 01:07:37.003][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-11 01:07:37.007][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-11 01:07:37.010][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-11 01:07:37.014][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-11 01:07:37.018][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-11 01:07:37.022][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-11 01:07:37.025][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-11 01:07:37.029][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-11 01:07:37.033][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-11 01:07:37.036][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-11 01:07:37.039][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-11 01:07:37.042][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-11 01:07:37.046][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-11 01:07:37.049][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-11 01:07:37.052][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-11 01:07:37.056][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-11 01:07:37.059][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-11 01:07:37.063][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-11 01:07:37.066][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-11 01:07:37.072][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-11 01:07:37.076][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-11 01:07:37.079][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-11 01:07:37.083][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-11 01:07:37.087][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-11 01:07:37.090][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-11 01:07:37.094][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-11 01:07:37.098][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-11 01:07:37.101][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-11 01:07:37.105][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-11 01:07:37.109][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-11 01:07:37.113][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-11 01:07:37.117][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-11 01:07:37.121][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-11 01:07:37.125][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-11 01:07:37.129][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-11 01:07:37.133][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-11 01:07:37.136][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-11 01:07:37.140][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-11 01:07:37.143][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-11 01:07:37.147][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-11 01:07:37.151][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-11 01:07:37.155][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-11 01:07:37.158][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-11 01:07:37.162][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-11 01:07:37.166][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-11 01:07:37.169][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-11 01:07:37.173][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-11 01:07:37.176][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-11 01:07:37.180][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-11 01:07:37.183][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-11 01:07:37.195][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-11 01:07:37.199][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-11 01:07:37.203][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-11 01:07:37.207][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-11 01:07:37.210][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-11 01:07:37.214][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-11 01:07:37.217][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-11 01:07:37.221][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-11 01:07:37.224][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-11 01:07:37.228][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-11 01:07:37.231][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-11 01:07:37.235][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-11 01:07:37.239][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-11 01:07:37.242][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-11 01:07:37.246][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-11 01:07:37.249][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-11 01:07:37.253][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-11 01:07:37.257][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-11 01:07:37.260][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-11 01:07:37.264][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-11 01:07:37.267][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-11 01:07:37.271][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-11 01:07:37.275][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-11 01:07:37.279][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-11 01:07:37.283][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-11 01:07:37.287][initialize] This is biodb version 1.12.0.
biodb.DEBUG[2024-07-11 01:07:37.289][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-11 01:07:37.291][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.296][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.344][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[2024-07-11 01:07:37.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.427][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[2024-07-11 01:07:37.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.469][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[2024-07-11 01:07:37.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.561][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[2024-07-11 01:07:37.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-11 01:07:37.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:37.582][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2024-07-11 01:07:37.586][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:37.591][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:37.593][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-11 01:07:37.596][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:37.598][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-11 01:07:37.601][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:37.603][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2024-07-11 01:07:37.606][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:37.608][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-11 01:07:37.611][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-11 01:07:37.613][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-11 01:07:37.615][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:37.618][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2024-07-11 01:07:37.620][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2024-07-11 01:07:37.623][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2024-07-11 01:07:37.626][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-11 01:07:37.628][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-11 01:07:37.628][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2024-07-11 01:07:37.628][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2024-07-11 01:07:37.630][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-11 01:07:37.633][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:37.636][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:37.639][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-11 01:07:37.641][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-11 01:07:37.643][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-11 01:07:37.646][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-11 01:07:37.649][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-11 01:07:37.649][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2024-07-11 01:07:37.652][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:37.654][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:37.657][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-11 01:07:37.659][self$setPropertyValue]
biodb.DEBUG[2024-07-11 01:07:37.663][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2024-07-11 01:07:37.666][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-11 01:07:37.670][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-11 01:07:37.674][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-11 01:07:37.679][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-11 01:07:37.687][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:37.689][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2024-07-11 01:07:37.693][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:37.696][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:37.699][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:37.701][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:37.704][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2024-07-11 01:07:37.707][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2024-07-11 01:07:37.709][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2024-07-11 01:07:37.709][self$setPropertyValue] Setting property "urls" to "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2024-07-11 01:07:37.712][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-11 01:07:37.722][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-11 01:07:37.724][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2024-07-11 01:07:37.726][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2024-07-11 01:07:37.729][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2024-07-11 01:07:37.733][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:37.736][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:37.738][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:37.742][private$addConnectorRules] Create new rule for URL "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2024-07-11 01:07:37.745][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-11 01:07:37.747][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2024-07-11 01:07:37.750][biodb::testThat]
biodb.INFO [2024-07-11 01:07:37.752][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2024-07-11 01:07:37.755][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-11 01:07:37.757][biodb::testThat]
biodb.DEBUG[2024-07-11 01:07:37.761][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-11 01:07:37.764][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-11 01:07:37.766][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2024-07-11 01:07:37.773][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:37.776][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:37.779][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:37.783][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:37.785][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:37.788][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:37.790][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:37.793][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:37.795][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:37.798][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-11 01:07:37.800][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2024-07-11 01:07:37.804][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2024-07-11 01:07:37.807][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-11 01:07:37.810][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:37.814][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-11 01:07:37.819][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2024-07-11 01:07:37.821][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-11 01:07:37.824][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2024-07-11 01:07:37.827][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-11 01:07:37.830][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-11 01:07:37.832][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-11 01:07:37.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:37.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:37.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:37.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:37.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:37.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:37.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-11 01:07:37.867][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:37.870][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:37.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.875][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:37.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:37.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.888][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:37.890][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:37.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.895][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.898][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:37.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:37.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.908][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:37.911][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:37.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.916][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.918][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:37.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:37.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.928][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:37.931][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:37.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.935][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.938][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:37.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:37.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.948][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:37.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:37.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.956][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:37.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:37.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.969][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:37.972][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:37.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:37.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:37.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:37.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:37.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.002][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.005][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.010][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.013][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.023][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.026][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.030][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.033][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.044][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.047][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.055][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.065][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.067][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.072][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.074][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.084][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:38.087][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:38.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.092][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.094][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:38.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:38.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.104][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:38.106][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:38.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.111][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:38.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:38.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.126][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.128][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.134][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.147][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.154][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.166][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.169][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.174][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.177][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.188][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:38.191][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:38.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.197][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.200][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:38.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:38.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.212][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:38.214][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:38.217][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.220][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.223][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:38.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:38.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.234][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:38.237][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:38.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.242][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.245][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:38.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:38.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:38.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:38.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:38.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:38.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:38.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:38.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.297][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:38.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:38.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.308][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:38.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:38.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.318][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:38.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:38.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.328][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:38.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:38.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.338][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:38.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:38.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.348][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:38.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:38.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:38.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:38.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:38.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:38.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:38.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:38.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:38.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:38.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:38.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:38.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:38.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.414][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.424][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.434][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:38.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.444][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.453][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.462][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:38.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.471][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:38.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:38.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.481][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:38.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:38.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.490][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:38.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:38.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.499][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:38.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:38.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.521][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:38.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:38.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.530][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:38.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:38.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.540][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:38.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:38.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.549][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:38.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:38.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.559][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:38.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:38.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:38.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:38.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:38.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:38.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:38.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:38.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.634][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.643][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.654][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:38.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:38.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.720][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.739][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.749][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.759][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:38.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.768][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:38.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:38.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.778][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:38.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.791][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:38.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:38.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.801][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:38.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:38.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.822][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:38.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:38.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:38.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:38.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.845][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:38.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.888][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:38.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:38.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.901][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.911][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.932][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:38.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.953][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:38.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:38.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.962][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:38.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:38.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:38.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:38.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.981][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:38.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:38.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:38.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:38.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:38.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:38.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:39.048][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2024-07-11 01:07:39.050][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.060][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.069][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.087][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:39.097][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-11 01:07:39.100][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-11 01:07:39.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:39.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:39.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:39.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:39.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:39.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:39.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:39.125][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2024-07-11 01:07:39.128][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2024-07-11 01:07:39.132][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:39.135][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2024-07-11 01:07:39.139][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2024-07-11 01:07:39.143][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-11 01:07:39.146][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2024-07-11 01:07:39.149][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2024-07-11 01:07:39.152][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2024-07-11 01:07:39.154][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2024-07-11 01:07:39.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:39.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:39.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:39.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:39.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:39.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:39.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-11 01:07:39.189][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.192][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.197][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.210][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:39.213][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:39.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.218][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.221][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:39.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:39.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.232][ef$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.236][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.241][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.245][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.256][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.259][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.264][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.267][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.278][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.281][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.286][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.300][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.302][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.307][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.321][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.323][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.330][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.334][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.344][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:39.347][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:39.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.353][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.355][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:39.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:39.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.376][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.380][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.387][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.390][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.401][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.404][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.422][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:39.425][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:39.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.430][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.433][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:39.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:39.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.443][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:39.446][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:39.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.451][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.454][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:39.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.464][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.467][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.472][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.485][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:39.488][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:39.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.493][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:39.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:39.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.506][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:39.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:39.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.513][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.516][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:39.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:39.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.526][ef$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.528][ef$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.533][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.547][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:39.550][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:39.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.555][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.558][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:39.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:39.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.569][ef$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:39.571][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:39.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.577][ef$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.579][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2024-07-11 01:07:39.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:39.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:39.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:39.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.620][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.630][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.639][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-11 01:07:39.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.658][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.670][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.680][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-07-11 01:07:39.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-11 01:07:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2024-07-11 01:07:39.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.750][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.770][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2024-07-11 01:07:39.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.780][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.790][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.799][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2024-07-11 01:07:39.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.808][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:39.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:39.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.818][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:39.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:39.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.828][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:39.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2024-07-11 01:07:39.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.838][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.849][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.861][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:39.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.874][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:39.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:39.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.883][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:39.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:39.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.892][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-11 01:07:39.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-11 01:07:39.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:39.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.911][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:39.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:39.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-11 01:07:39.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-11 01:07:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:39.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.970][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.980][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.989][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-11 01:07:39.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:39.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:39.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:40.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:40.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:40.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:40.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:40.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-11 01:07:40.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.030][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:40.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:40.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:40.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:40.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:40.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:40.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.062][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:40.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:40.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.074][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:40.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:40.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.084][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:40.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2024-07-11 01:07:40.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.094][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:40.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:40.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.104][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:40.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.115][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:40.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2024-07-11 01:07:40.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:40.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:40.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.136][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:40.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:40.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-11 01:07:40.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-11 01:07:40.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.154][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:40.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.163][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:40.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:40.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:40.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-11 01:07:40.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:40.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.200][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2024-07-11 01:07:40.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-11 01:07:40.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:40.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:40.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:40.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:40.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:40.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.241][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:40.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:40.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-11 01:07:40.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-11 01:07:40.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.259][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:40.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:40.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.269][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:40.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:40.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:40.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.288][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:40.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2024-07-11 01:07:40.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:40.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:40.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:40.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:40.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:40.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:40.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:40.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:40.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:40.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:40.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-11 01:07:40.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-11 01:07:40.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:40.355][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2024-07-11 01:07:40.357][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.367][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.376][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.386][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:40.396][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-11 01:07:40.398][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:40.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:40.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:40.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:40.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:40.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:40.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:40.422][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[2024-07-11 01:07:40.435][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-11 01:07:40.437][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-11 01:07:40.440][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2024-07-11 01:07:40.444][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:40.447][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:40.450][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:40.463][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:40.465][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:40.469][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:40.472][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:40.475][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:40.477][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:40.480][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-11 01:07:40.483][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-11 01:07:40.487][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.498][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.509][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.518][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.528][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.538][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.550][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:40.560][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-11 01:07:40.562][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-11 01:07:40.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:40.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:40.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:40.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:40.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:40.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:40.588][FUN] Functions in observer BiodbConfig: [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[2024-07-11 01:07:40.591][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.601][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.611][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.621][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.632][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.642][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.653][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:40.664][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-11 01:07:40.666][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-11 01:07:40.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:40.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:40.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:40.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:40.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:40.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:40.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-11 01:07:40.708][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2024-07-11 01:07:40.710][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-11 01:07:40.713][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2024-07-11 01:07:40.717][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:40.721][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:40.724][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2024-07-11 01:07:40.729][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2024-07-11 01:07:40.731][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2024-07-11 01:07:40.735][private$doListFiles] List files in /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2024-07-11 01:07:40.738][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2024-07-11 01:07:40.750][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2024-07-11 01:07:40.752][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2024-07-11 01:07:40.755][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2024-07-11 01:07:40.757][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2024-07-11 01:07:40.761][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.771][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.781][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.801][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.811][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.821][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:40.831][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2024-07-11 01:07:40.833][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2024-07-11 01:07:40.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:40.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:40.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:40.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:40.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:40.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:40.856][FUN] Functions in observer BiodbConfig: [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[2024-07-11 01:07:40.859][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.869][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.878][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.898][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.907][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-11 01:07:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2024-07-11 01:07:40.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2024-07-11 01:07:40.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-11 01:07:40.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-11 01:07:40.928][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2024-07-11 01:07:40.931][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2024-07-11 01:07:40.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-11 01:07:40.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:40.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:40.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:40.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:40.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:40.955][FUN] Functions in observer BiodbConfig: [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 [2024-07-11 01:07:40.972][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-11 01:07:40.975][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2024-07-11 01:07:40.978][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2024-07-11 01:07:40.980][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-11 01:07:40.982][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-11 01:07:40.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-11 01:07:40.986][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-11 01:07:40.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-11 01:07:40.990][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-11 01:07:40.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
 20.852   1.012  42.517

CHECK results for biodbHmdb on merida1

Summary

Command output

Installation output

Tests output

Example timings